Mechanisms of Ribozyviria Transmission in Animal and Vegetal Holobionts

A special issue of Viruses (ISSN 1999-4915). This special issue belongs to the section "General Virology".

Deadline for manuscript submissions: 31 December 2025 | Viewed by 19

Special Issue Editors


E-Mail Website
Guest Editor
Gastroenterology and Hepatology Unit, University Hospital of Pisa, 56127 Pisa, Italy
Interests: hepatitis virus; HBV; HCV; HDV

E-Mail Website
Guest Editor
Department of Biotructure and Bioimaging (IBB), National Research Council of Italy (CNR), 13 Lungarno Bruno Buozzi, 56125 Pisa, Italy
Interests: hepatitis; steatosis; hepatocellular carcinoma; cirrhosis; clinical pathology; digital imaging
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Special Issue Information

Dear Colleagues,

Eukaryotes form composite multicellular organisms called “holobionts” that live in symbiosis with their microbiomes, including viruses. The vast majority of RNA viruses live in Eukaryotes [1], including the smallest subviral forms of viroids and viroid-like covalently closed circular (ccc) RNAs that hijack cellular enzymes for replication [2]. Hepatitis Delta Virus (HDV) is the progenitor of a conspicuous group of viroid-like, negative-sense single-stranded RNA viruses forming the new viral realm of Ribozyviria [3–6]. These viruses behave as satellite ribonucleic acids that may encode non-structural proteins and are encapsidated within the coat proteins of helper symbiont viruses [7–10]. Ribozyviria share at least two of the following characteristics: presence of enveloped spherical virions; presence of a circular negative-sense RNA genome containing ribozymes and encoding an HDAg homolog; and need for an unrelated helper virus for the assembly of infectious virions [7–10]. So far, the phylogenetic tree of Delta Antigen (HDAg) homologs has been found to include eleven genera forming monophyletic clades. Since the original characterization of chimeric HDV virion in humans, it has become evident that the envelope Hepatitis B surface Antigen (HBsAg) provided by Hepatitis B Virus has a specific composition of the HBsAg constitutive proteins (ratio of pre-S1, pre-S2, and S antigens) [11,12]. Following this, it has been found that defective HBsAg particles behaving as extracellular vesicles export and circulate hepatic mRNAs [13,14] and, interestingly, that miRNA signatures carried by circulating HBsAg particles are comparable in patients with active HBV or HDV infection and disease, but significantly different from HBsAg carriers with inactive HBV infection (i.e., without chronic hepatitis B and/or D) [15,16]. HDV could be consistently detected sporadically, even in the absence of HBV infection, but without any evidence of efficient persistence and spread of HDV infection without the mandatory support of a specific expression of HBsAg [17–19]. Finally, current anti-HDV therapy relies on the specific blockage of HBV and HDV entry into the hepatocyte in vitro and in vivo by means of a 47-aa synthetic N-acetilated HBV-pre-S1-derived lipopeptide (Myrcludex B, Bulevirtide) that binds the sodium taurocholate co-transporting polypeptide (NTCP) [20].

All of this evidence poses the tantalizing question of which specific features are required for efficient extracellular export of the HDV-RNA genome as well as other intranuclear RNA forms and Ribozyviria. This Special Issue of Viruses is dedicated to understanding the mechanisms of transmission of Ribozyviria in and between vegetal and animal holobionts, addressing this interdisciplinary issue with a system medicine approach to foster the cross-fertilization of ideas between scientists and researchers of different disciplines.

References

  1. Koonin, E.V.; Dolja, V.V.; Krupovic, M. Origins and Evolution of Viruses of Eukaryotes: The Ultimate Modularity. Virology 2015, 479–480, 2–25.
  2. Lee, B.D.; Neri, U.; Roux, S.; Wolf, Y.I.; Camargo, A.P.; Krupovic, M.; RNA Virus Discovery Consortium; Simmonds, P.; Kyrpides, N.; Gophna, U.; et al. Mining meta-transcriptomes reveals a vast world of viroid-like circular RNAs. Cell 2023, 186, 646–661.
  3. Hepojoki, J.; Hetzel, U.; Paraskevopoulou, S.; Drosten, C.; Harrach, B.; Murilo, F.; Zerbini, M.; Koonin, E.V.; Krupovic, M.; Dolja, V.V.; et al. Create One New Realm (Ribozyviria) Including One New Family (Kolmioviridae) Including Genus Deltavirus and Seven New Genera for a Total of 15 Species; Report Number: ICTV [International Committee for Taxonomy of Viruses] Proposal (Taxoprop) No. 2020.012D; Research Gate: Berlin, Germany, 2021.
  4. Walker, P.J.; Siddell, S.G.; Lefkowitz, E.J.; Mushegian, A.R.; Adriaenssens, E.M.; Alfenas-Zerbini, P.; Davison, A.J.; Dempsey, D.M.; Dutilh, B.E.; García, M.L.; et al. Changes to virus taxonomy and to the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2021). Arch. Virol. 2021, 166, 2633–2648.
  5. Kos, A.; Dijkema, R.; Arnberg, A.C.; van der Meide, P.H.; Schellekens, H. The hepatitis delta (delta) virus possesses a circular RNA. Nature 1986, 323, 558–560.
  6. Taylor, J.M. Infection by Hepatitis Delta Virus. Viruses 2020, 12, 648.
  7. Chang, W.S.; Pettersson, J.H.; Le Lay, C.; Shi, M.; Lo, N.; Wille, M.; Eden, J.S.; Holmes, E.C. Novel hepatitis D-like agents in vertebrates and invertebrates. Virus Evol. 2019, 5, 2–10.
  8. Kristensen, L.S.; Andersen, M.S.; Stagsted, L.V.W.; Ebbesen, K.K.; Hansen, T.B.; Kjems, J. The biogenesis, biology and characterization of circular RNAs. Nat. Rev. Genet. 2019, 20, 675–691.
  9. Netter, H.J.; Barrios, M.H.; Littlejohn, M.; Yuen, L.K.W. Hepatitis Delta Virus (HDV) and Delta-Like Agents: Insights Into Their Origin. Front. Microbiol. 2021, 12, 652962.
  10. Pérez-Vargas, J.; Pereira de Oliveira, R.; Jacquet, S.; Pontier, D.; Cosset, F.; Freitas, N. HDV-Like Viruses. Viruses 2021, 13, 1207.
  11. Bonino, F.; Hoyer, B.; Shih, J.W.; Rizzetto, M.; Purcell, R.H.; Gerin, J.L. Delta hepatitis agent: Structural and antigenic properties of the delta-associated particle. Infect. Immun. 1984, 43, 1000–1005.
  12. Bonino, F.; Heermann, K.H.; Rizzetto, M.; Gerlich, W.H. Hepatitis delta virus: Protein composition of delta antigen and its hepatitis B virus-derived envelope. J. Virol. 1986, 58, 945–950.
  13. Novellino, L.; Rossi, R.L.; Bonino, F.; Cavallone, D.; Abrignani, S.; Pagani, M.; Brunetto, M.R. Circulating hepatitis B surface antigen particles carry hepatocellular microRNAs. PLoS ONE 2012, 7, e31952.
  14. Blondal, T.; Brunetto, M.R.; Cavallone, D.; Mikkelsen, M.; Thorsen, M.; Mang, Y.; Pinheiro, H.; Bonino, F.; Mouritzen, P. Genome-Wide Comparison of Next-Generation Sequencing and qPCR Platforms for microRNA Profiling in Serum. Methods Mol. Biol. 2017, 1580, 21–44.
  15. Brunetto, M.R.; Cavallone, D.; Oliveri, F.; Moriconi, F.; Colombatto, P.; Coco, B.; Ciccorossi, P.; Rastelli, C.; Romagnoli, V.; Cherubini, B.; et al. A serum MicroRNA signature is associated with the immune control of chronic hepatitis B virus infection. PLoS ONE 2014, 9, e110782.
  16. Cavallone, D.; Ornos, E.D.B.; Ricco, G.; Oliveri, F.; Coco, B.; Colombatto, P.; De Rosa, L.; Dalmacio, L.M.M.; Bonino, F.; Brunetto, M.R. The Circulating miRNA Profile of Chronic Hepatitis D and B Patients Is Comparable but Differs from That of Individuals with HBeAg-Negative HBV Infection. Viruses 2023, 15, 2257.
  17. Giersch, K.; Bhadra, O.D.; Volz, T.; Allweiss, L.; Riecken, K.; Fehse, B.; Lohse, A.W.; Petersen, J.; Sureau, C.; Urban, S.; et al. Hepatitis delta virus persists during liver regeneration and is amplified through cell division both in vitro and in vivo. Gut 2019, 68, 150–157.
  18. Perez-Vargas, J.; Amirache, F.; Boson, B.; Mialon, C.; Freitas, N.; Sureau, C.; Fusil, F.; Cosset, F.L. Enveloped viruses distinct from HBV induce dissemination of hepatitis D virus in vivo. Nat. Comm. 2019, 10, 2098.
  19. Pflüger, L.S.; Schulze, Z.W.J.; Polywka, S.; Lütgehetmann, M. Hepatitis delta virus propagation enabled by hepatitis C virus—Scientifically intriguing, but is it relevant to clinical practice? J. Viral Hepat. 2020, 28, 213–216.
  20. European Association for the Study of the Liver (EASL). Clinical Practice Guidelines on hepatitis delta virus. J. Hepatol. 2023, 79, 433–460.

Prof. Dr. Maurizia Rossana Brunetto
Prof. Dr. Ferruccio Bonino
Guest Editors

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Keywords

  • viroid-like RNAs
  • holobionts
  • RNA viruses
  • circular RNA genomes
  • satellite viruses
  • HBsAg (hepatitis b surface antigen)

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