Mimiviridae

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Mimiviridae
Tupanvirus.jpeg
Tupanvirus
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(unranked): Virus
Realm: Varidnaviria
Kingdom: Bamfordvirae
Phylum: Nucleocytoviricota
Class: Megaviricetes
Order: Imitervirales
Family:Mimiviridae
Subfamilies and genera

Mimiviridae is a family of viruses. Amoeba and other protists serve as natural hosts. The family is divided in up to 4 subfamilies. [1] [2] [3] [4] Viruses in this family belong to the nucleocytoplasmic large DNA virus clade (NCLDV), also referred to as giant viruses.

Contents

Mimiviridae is the sole recognized member of order Imitervirales. Phycodnaviridae and Pandoraviridae of Algavirales are sister groups of Mimiviridae in many phylogenetic analyses. [5]

History

The first member of this family, Mimivirus, was discovered in 2003, [6] and the first complete genome sequence was published in 2004. [7] However, the mimivirus Cafeteria roenbergensis virus [8] was isolated and partially characterized in 1995, [9] although the host was misidentified at the time, and the virus was designated BV-PW1. [8]

Taxonomy

Group: dsDNA

Order: Imitervirales

FamilyMimiviridae is currently divided into three subfamilies. [2] [3] [10]

The majority of Mimiviridae appear to belong to this subfamily (Mimiviruses). [10]
It is sometimes also referred to as Mimiviridae group I. [17]

Furthermore, it has been proposed either to extend Mimiviridae by an additional tentative group III (subfamily Mesomimivirinae) or to classify this group as a sister family Mesomimiviridae instead, [19] comprising legacy OLPG (Organic Lake Phycodna Group). This extension (or sister family) may consist of the following:

This group seems to be closely related to Mimiviridae rather than to Phycodnaviridae and therefore is sometimes referred to as a further subfamily candidate Mesomimivirinae . Sometimes the extended family Mimiviridae is referred to as Megaviridae although this has not been recognized by ICTV; alternatively the extended group may be referred to just as Mimiviridae. [3] [23] [24] [25] [26] [17]

With recognition of new order Imitervirales by the ICTV in March 2020 there is no longer need to extend the Mimiviridae family to comprise a group of viruses of the observed high diversity. Instead, the extension (or at least its main clade) may be referred to as a sister family Mesomimiviridae. [19]

Although only a couple of members of this order have been described in detail it seems likely there are many more awaiting description and assignment [27] [28] Unassigned members include Aureococcus anophagefferens virus (AaV), CpV-BQ2 and Terra2.[ citation needed ]

Structure

Ultrastructure of Bodo saltans virus particles and its replication BsV from eLife.jpg
Ultrastructure of Bodo saltans virus particles and its replication

[18] Viruses in Mimiviridae have icosahedral and round geometries, with between T=972 and T=1141, or T=1200 symmetry. The diameter is around 400 nm, with a length of 125 nm. Genomes are linear and non-segmented, around 1200kb in length. The genome has 911 open reading frames. [1]

GenusStructureSymmetryGenomic arrangementGenomic segmentation
MimivirusIcosahedralT=972-1141 or T=1200 (H=19 +/- 1, K=19 +/- 1)LinearMonopartite
KlosneuvirusIcosahedral
CafeteriavirusIcosahedralT=499LinearMonopartite
TupanvirusTailed

Life cycle

Replication follows the DNA strand displacement model. DNA-templated transcription is the method of transcription. Amoeba serve as the natural host. [1]

GenusHost detailsTissue tropismEntry detailsRelease detailsReplication siteAssembly siteTransmission
MimivirusAmoebaNoneUnknownUnknownUnknownUnknownPassive diffusion
KlosneuvirusmicrozooplanktonNoneUnknownUnknownUnknownCytoplasmPassive diffusion
CafeteriavirusmicrozooplanktonNoneUnknownUnknownUnknownCytoplasmPassive diffusion

Molecular biology

Three putative DNA base excision repair enzymes were characterized from Mimivirus. [29] The base excision repair (BER) pathway was experimentally reconstituted using the purified recombinant proteins uracil-DNA glycosylase (mvUDG), AP endonuclease (mvAPE), and DNA polymerase X protein (mvPolX). [29] When reconstituted in vitro mvUDG, mvAPE and mvPolX function cohesively to repair uracil-containing DNA predominantly by long patch base excision repair, and thus these processes likely participate in the BER pathway early in the Mimivirus life cycle. [29]

Clinical

Mimiviruses have been associated with pneumonia but their significance is currently unknown. [30] The only virus of this family isolated from a human to date is LBA 111. [31] At the Pasteur Institute of Iran (Tehran), researchers identified mimivirus DNA in bronchoalveolar lavage (BAL) and sputum samples of a child patient, utilizing real-time PCR (2018).  Analysis reported 99% homology of LBA111, lineage C of the Megavirus chilensis. [32] With only a few reported cases previous to this finding, the legitimacy of the mimivirus as an emerging infectious disease in humans remains controversial. [33] [34]

Mimivirus has also been implicated in rheumatoid arthritis. [35]

See also

Related Research Articles

<i>Mimivirus</i> Genus of viruses

Mimivirus is a genus of giant viruses, in the family Mimiviridae. Amoeba serve as their natural hosts. This genus contains a single identified species named Acanthamoeba polyphaga mimivirus (APMV). It also refers to a group of phylogenetically related large viruses.

<span class="mw-page-title-main">Satellite (biology)</span> Subviral agent which depends on a helper virus for its replication

A satellite is a subviral agent that depends on the coinfection of a host cell with a helper virus for its replication. Satellites can be divided into two major classes: satellite viruses and satellite nucleic acids. Satellite viruses, which are most commonly associated with plants, are also found in mammals, arthropods, and bacteria. They encode structural proteins to enclose their genetic material, which are therefore distinct from the structural proteins of their helper viruses. Satellite nucleic acids, in contrast, do not encode their own structural proteins, but instead are encapsulated by proteins encoded by their helper viruses. The genomes of satellites range upward from 359 nucleotides in length for satellite tobacco ringspot virus RNA (STobRV).

<span class="mw-page-title-main">Mobilome</span>

The mobilome is the entire set of mobile genetic elements in a genome. Mobilomes are found in eukaryotes, prokaryotes, and viruses. The compositions of mobilomes differ among lineages of life, with transposable elements being the major mobile elements in eukaryotes, and plasmids and prophages being the major types in prokaryotes. Virophages contribute to the viral mobilome.

<span class="mw-page-title-main">Virophage</span> Viral parasites of giant viruses

Virophages are small, double-stranded DNA viral phages that require the co-infection of another virus. The co-infecting viruses are typically giant viruses. Virophages rely on the viral replication factory of the co-infecting giant virus for their own replication. One of the characteristics of virophages is that they have a parasitic relationship with the co-infecting virus. Their dependence upon the giant virus for replication often results in the deactivation of the giant viruses. The virophage may improve the recovery and survival of the host organism.

<span class="mw-page-title-main">Sputnik virophage</span> Subviral agent

Mimivirus-dependent virus Sputnik is a subviral agent that reproduces in amoeba cells that are already infected by a certain helper virus; Sputnik uses the helper virus's machinery for reproduction and inhibits replication of the helper virus. It is known as a virophage, in analogy to the term bacteriophage.

Mamavirus is a large and complex virus in the Group I family Mimiviridae. The virus is exceptionally large, and larger than many bacteria. Mamavirus and other mimiviridae belong to nucleocytoplasmic large DNA virus (NCLDVs) family. Mamavirus can be compared to the similar complex virus mimivirus; mamavirus was so named because it is similar to but larger than mimivirus.

Marseillevirus is a genus of viruses, in the family Marseilleviridae. There are two species in this genus. It is the prototype of a family of nucleocytoplasmic large DNA viruses (NCLDV) of eukaryotes. It was isolated from amoeba.

<i>Cafeteria roenbergensis virus</i> Species of virus

Cafeteria roenbergensis virus (CroV) is a giant virus that infects the marine bicosoecid flagellate Cafeteria roenbergensis, a member of the microzooplankton community.

Organic Lake is a lake in the Vestfold Hills in eastern Antarctica. It was formed 6,000 years ago when sea levels were higher; it is isolated, rather shallow 7.5 metres (25 ft), meromictic, a few hundred meters in diameter and has extremely salty water. It has the highest recorded concentration of dimethyl sulfide in any natural body of water.

A giant virus, sometimes referred to as a girus, is a very large virus, some of which are larger than typical bacteria. All known giant viruses belong to the phylum Nucleocytoviricota.

<i>Marseilleviridae</i> Family of viruses

Marseilleviridae is a family of viruses first named in 2012. The genomes of these viruses are double-stranded DNA. Amoeba are often hosts, but there is evidence that they are found in humans as well. The family contains one genus and four species, two of which are unassigned to a genus. It is a member of the nucleocytoplasmic large DNA viruses clade.

<span class="mw-page-title-main">Megavirus</span> Genus of viruses

Megavirus is a viral genus containing a single identified species named Megavirus chilense, phylogenetically related to Acanthamoeba polyphaga Mimivirus (APMV). In colloquial speech, Megavirus chilensis is more commonly referred to as just “Megavirus”. Until the discovery of pandoraviruses in 2013, it had the largest capsid diameter of all known viruses, as well as the largest and most complex genome among all known viruses.

Organic Lake virophage (OLV) is a double-stranded DNA virophage. It was detected metagenomically in samples from Organic Lake, Antarctica.

A transpoviron is a plasmid-like genetic element found in the genomes of giant DNA viruses.

<span class="mw-page-title-main">Zamilon virophage</span> Virus type

Mimivirus-dependent virus Zamilon, or Zamilon, is a virophage, a group of small DNA viruses that infect protists and require a helper virus to replicate; they are a type of satellite virus. Discovered in 2013 in Tunisia, infecting Acanthamoeba polyphaga amoebae, Zamilon most closely resembles Sputnik, the first virophage to be discovered. The name is Arabic for "the neighbour". Its spherical particle is 50–60 nm in diameter, and contains a circular double-stranded DNA genome of around 17 kb, which is predicted to encode 20 polypeptides. A related strain, Zamilon 2, has been identified in North America.

<i>Faustovirus</i> Genus of viruses

Faustovirus is a genus of giant virus which infects amoebae associated with humans. The virus was first isolated in 2015 and shown to be around 0.2 micrometers in diameter with a double stranded DNA genome of 466 kilobases predicted to encode 451 proteins. Although classified as a nucleocytoplasmic large DNA virus (NCLDV), faustoviruses share less than a quarter of their genes with other NCLDVs; however, ~46% are homologous to bacterial genes and the remainder are orphan genes (ORFans). Specifically, the gene encoding the major capsid protein (MCP) of faustovirus is different than that of its most closely related giant virus, asfivirus, as well as other NCLDVs. In asfivirus, the gene encoding MCP is a single genomic fragment of ~2000 base pairs (bp), however, in faustovirus the MCP is encoded by 13 exons separated by 12 large introns. The exons have a mean length of 149 bp and the introns have a mean length of 1,273 bp. The presence of introns in faustovirus genes is highly unusual for viruses.

Polintons are large DNA transposons which contain genes with homology to viral proteins and which are often found in eukaryotic genomes. They were first discovered in the mid-2000s and are the largest and most complex known DNA transposons. Polintons encode up to 10 individual proteins and derive their name from two key proteins, a DNA polymerase and a retroviral-like integrase.

<i>Tupanvirus</i> Proposed genus of viruses

Tupanvirus is a genus of viruses first described in 2018. The genus is composed of two species of virus that are in the giant virus group. Researchers discovered the first isolate in 2012 from deep water sediment samples taken at 3000m depth off the coast of Brazil. The second isolate was collected from a soda lake in Southern Nhecolândia, Brazil in 2014. They are named after Tupã (Tupan), a Guaraní thunder god, and the places they were found. These are the first viruses reported to possess genes for amino-acyl tRNA synthetases for all 20 standard amino acids.

<i>Varidnaviria</i> Realm of viruses

Varidnaviria is a realm of viruses that includes all DNA viruses that encode major capsid proteins that contain a vertical jelly roll fold. The major capsid proteins (MCP) form into pseudohexameric subunits of the viral capsid, which stores the viral deoxyribonucleic acid (DNA), and are perpendicular, or vertical, to the surface of the capsid. Apart from this, viruses in the realm also share many other characteristics, such as minor capsid proteins (mCP) with the vertical jelly roll fold, an ATPase that packages viral DNA into the capsid, and a DNA polymerase that replicates the viral genome.

Nucleocytoviricota is a phylum of viruses. Members of the phylum are also known as the nucleocytoplasmic large DNA viruses (NCLDV), which serves as the basis of the name of the phylum with the suffix -viricota for virus phylum. These viruses are referred to as nucleocytoplasmic because they are often able to replicate in both the host's cell nucleus and cytoplasm.

References

  1. 1 2 3 "Viral Zone". ExPASy. Retrieved 15 June 2015.
  2. 1 2 ICTV. "Virus Taxonomy: 2014 Release" . Retrieved 15 June 2015.
  3. 1 2 3 4 5 Schulz, Frederik; Yutin, Natalya; Ivanova, Natalia N.; Ortega, Davi R.; Lee, Tae Kwon; Vierheilig, Julia; Daims, Holger; Horn, Matthias; Wagner, Michael (7 April 2017). "Giant viruses with an expanded complement of translation system components" (PDF). Science. 356 (6333): 82–85. Bibcode:2017Sci...356...82S. doi: 10.1126/science.aal4657 . ISSN   0036-8075. PMID   28386012. S2CID   206655792., UCPMS ID: 1889607, PDF
  4. 1 2 Abrahão, Jônatas; Silva, Lorena; Silva, Ludmila Santos; Khalil, Jacques Yaacoub Bou; Rodrigues, Rodrigo; Arantes, Thalita; Assis, Felipe; Boratto, Paulo; Andrade, Miguel; Kroon, Erna Geessien; Ribeiro, Bergmann; Bergier, Ivan; Seligmann, Herve; Ghigo, Eric; Colson, Philippe; Levasseur, Anthony; Kroemer, Guido; Raoult, Didier; Scola, Bernard La (27 February 2018). "Tailed giant Tupanvirus possesses the most complete translational apparatus of the known virosphere". Nature Communications. 9 (1): 749. Bibcode:2018NatCo...9..749A. doi:10.1038/s41467-018-03168-1. PMC   5829246 . PMID   29487281. Fig. 4 and §Discussion: "Considering that tupanviruses comprise a sister group to amoebal mimiviruses…"
  5. ↑ Bäckström D, Yutin N, Jørgensen SL, Dharamshi J, Homa F, Zaremba-Niedwiedzka K, Spang A, Wolf YI, Koonin EV, Ettema TJ (2019). "Virus genomes from deep sea sediments expand the ocean megavirome and support independent origins of viral gigantism". mBio. 10 (2): e02497-18. doi:10.1128/mBio.02497-18. PMC   6401483 . PMID   30837339. PDF
  6. ↑ Suzan-Monti, M; La Scola, B; Raoult, D (2006). "Genomic and evolutionary aspects of Mimivirus". Virus Res. 117 (1): 145–155. doi:10.1016/j.virusres.2005.07.011. PMID   16181700.
  7. ↑ Raoult, D.; Audic, S; Robert, C; Abergel, C; Renesto, P; Ogata, H; La Scola, B; Suzan, M; Claverie, JM (2004). "The 1.2-Megabase Genome Sequence of Mimivirus". Science. 306 (5700): 1344–50. Bibcode:2004Sci...306.1344R. doi:10.1126/science.1101485. PMID   15486256. S2CID   84298461.
  8. 1 2 3 Matthias G. Fischer; Michael J. Allen; William H. Wilson; Curtis A. Suttle (2010). "Giant virus with a remarkable complement of genes infects marine zooplankton". Proceedings of the National Academy of Sciences. 107 (45): 19508–13. Bibcode:2010PNAS..10719508F. doi: 10.1073/pnas.1007615107 . PMC   2984142 . PMID   20974979.
  9. ↑ D.R. Garza; C.A. Suttle (1995). "Large double-stranded DNA viruses which cause the lysis of a marine heterotrophic nanoflagellate (Bodo sp.) occur in natural marine viral communities". Aquatic Microbial Ecology. 9 (3): 203–210. doi: 10.3354/ame009203 .
  10. 1 2 Colson P, Fournous G, Diene SM, Raoult D (2013). "Codon usage, amino acid usage, transfer RNA and amino-acyl-tRNA synthetases in Mimiviruses". Intervirology. 56 (6): 364–75. doi: 10.1159/000354557 . PMID   24157883.
  11. 1 2 3 Gaia M, Benamar S, Boughalmi M, Pagnier I, Croce O, Colson P, Raoult D, La Scola B (2014). "Zamilon, a novel virophage with Mimiviridae host specificity". PLOS ONE. 9 (4): e94923. Bibcode:2014PLoSO...994923G. doi: 10.1371/journal.pone.0094923 . PMC   3991649 . PMID   24747414.
  12. 1 2 3 See also Abrahão & et al. 2018 , fig. 4 on p. 5
  13. ↑ Desnues C, La Scola B, Yutin N, Fournous G, Robert C, Azza S, Jardot P, Monteil S, Campocasso A, Koonin EV, Raoult D (October 2012). "Provirophages and transpovirons as the diverse mobilome of giant viruses". Proc. Natl. Acad. Sci. U.S.A. 109 (44): 18078–83. Bibcode:2012PNAS..10918078D. doi: 10.1073/pnas.1208835109 . PMC   3497776 . PMID   23071316.
  14. ↑ Yutin N, Wolf YI, Koonin EV (October 2014). "Origin of giant viruses from smaller DNA viruses not from a fourth domain of cellular life". Virology. 466–467: 38–52. doi:10.1016/j.virol.2014.06.032. PMC   4325995 . PMID   25042053.
  15. ↑ Gaia M, Pagnier I, Campocasso A, Fournous G, Raoult D, La Scola B (2013). "Broad spectrum of mimiviridae virophage allows its isolation using a mimivirus reporter". PLOS ONE. 8 (4): e61912. Bibcode:2013PLoSO...861912G. doi: 10.1371/journal.pone.0061912 . PMC   3626643 . PMID   23596530.
  16. ↑ For LBA111 and Powai lake megavirus see also Abrahão & et al. 2018 , fig. 4 on p. 5
  17. 1 2 Zhang W, Zhou J, Liu T, Yu Y, Pan Y, Yan S, Wang Y (October 2015). "Four novel algal virus genomes discovered from Yellowstone Lake metagenomes". Sci Rep. 5: 15131. Bibcode:2015NatSR...515131Z. doi:10.1038/srep15131. PMC   4602308 . PMID   26459929.
  18. 1 2 Deeg, C.M.; Chow, E.C.T.; Suttle, C.A. (2018). "The kinetoplastid-infecting Bodo saltans virus (BsV), a window into the most abundant giant viruses in the sea". eLife. 7: e33014. doi: 10.7554/eLife.33014 . PMC   5871332 . PMID   29582753.
  19. 1 2 Jonathan Filée: Giant viruses and their mobile genetic elements: the molecular symbiosis hypothesis, in: Current Opinion in Virology, Volue 33, December 2018, pp. 81–88; bioRxiv   2018/04/11/299784
  20. ↑ NCBI Complete genomes: Viruses, look for 'Yellowstone Lake'
  21. ↑ Moniruzzaman, Mohammad; LeCleir, Gary R.; Brown, Christopher M.; Gobler, Christopher J.; Bidle, Kay D.; Wilson, William H.; Wilhelm, Steven W. (2014). "Genome of brown tide virus (AaV), the little giant of the Megaviridae, elucidates NCLDV genome expansion and host–virus coevolution". Virology. 466–467: 60–70. doi: 10.1016/j.virol.2014.06.031 . PMID   25035289.
  22. ↑ Schvarcz CR, Steward GF (May 2018). "A giant virus infecting green algae encodes key fermentation genes". Virology. 518: 423–433. doi: 10.1016/j.virol.2018.03.010 . PMID   29649682.
  23. ↑ Koonin EV, Krupovic M, Yutin N (April 2015). "Evolution of double-stranded DNA viruses of eukaryotes: from bacteriophages to transposons to giant viruses". Ann. N. Y. Acad. Sci. 1341 (1): 10–24, see Figure 3. Bibcode:2015NYASA1341...10K. doi:10.1111/nyas.12728. PMC   4405056 . PMID   25727355.
  24. ↑ Yutin N, Colson P, Raoult D, Koonin EV (April 2013). "Mimiviridae: clusters of orthologous genes, reconstruction of gene repertoire evolution and proposed expansion of the giant virus family". Virol. J. 10: 106. doi: 10.1186/1743-422X-10-106 . PMC   3620924 . PMID   23557328.
  25. ↑ Blog of Carolina Reyes, Kenneth Stedman: Are Phaeocystis globosa viruses (OLPG) and Organic Lake phycodnavirus a part of the Phycodnaviridae or Mimiviridae?, on ResearchGate, Jan. 8, 2016
  26. ↑ Maruyama F, Ueki S (2016). "Evolution and Phylogeny of Large DNA Viruses, Mimiviridae and Phycodnaviridae Including Newly Characterized Heterosigma akashiwo Virus". Front Microbiol. 7: 1942. doi: 10.3389/fmicb.2016.01942 . PMC   5127864 . PMID   27965659.
  27. ↑ Ghedin E, Claverie JM (August 2005). "Mimivirus relatives in the Sargasso sea". Virol. J. 2: 62. arXiv: q-bio/0504014 . Bibcode:2005q.bio.....4014G. doi: 10.1186/1743-422X-2-62 . PMC   1215527 . PMID   16105173.
  28. ↑ Monier A, Claverie JM, Ogata H (2008). "Taxonomic distribution of large DNA viruses in the sea". Genome Biol. 9 (7): R106. doi: 10.1186/gb-2008-9-7-r106 . PMC   2530865 . PMID   18598358.
  29. 1 2 3 Lad SB, Upadhyay M, Thorat P, Nair D, Moseley GW, Srivastava S, Pradeepkumar PI, Kondabagil K. Biochemical Reconstitution of the Mimiviral Base Excision Repair Pathway. J Mol Biol. 2023 Sep 1;435(17):168188. doi: 10.1016/j.jmb.2023.168188. Epub 2023 Jun 26. PMID: 37380013
  30. ↑ Saadi H, Pagnier I, Colson P, Cherif JK, Beji M, Boughalmi M, Azza S, Armstrong N, Robert C, Fournous G, La Scola B, Raoult D (August 2013). "First isolation of Mimivirus in a patient with pneumonia". Clin. Infect. Dis. 57 (4): e127–34. doi: 10.1093/cid/cit354 . PMID   23709652.
  31. ↑ Yoosuf N, Pagnier I, Fournous G, Robert C, La Scola B, Raoult D, Colson P (April 2014). "Complete genome sequence of Courdo11 virus, a member of the family Mimiviridae". Virus Genes. 48 (2): 218–23. doi:10.1007/s11262-013-1016-x. PMID   24293219. S2CID   12038772.
  32. ↑ Sakhaee, Fatemeh; Vaziri, Farzam; Bahramali, Golnaz; Davar Siadat, Seyed; Fateh, Abolfazl (October 2020). "Pulmonary Infection Related to Mimivirus in Patient with Primary Ciliary Dyskinesia". Emerging Infectious Diseases. 26 (10): 2524–2526. doi: 10.3201/eid2610.191613 . PMC   7510730 . PMID   32946733.
  33. ↑ La Scola, Bernard; Marrie, Thomas J.; Auffray, Jean-Pierre; Raoult, Didier (March 2005). "Mimivirus in pneumonia patients". Emerging Infectious Diseases. 11 (3): 449–452. doi: 10.3201/eid1103.040538 . PMC   3298252 . PMID   15757563.
  34. ↑ Saadi, Hanene; Pagnier, Isabelle; Colson, Philippe; Kanoun Cherif, Jouda; Beji, Majed; Boughalmi, Mondher; Azza, Saïd; Armstrong, Nicholas; Robert, Catherine; Fournous, Ghislain; La Scola, Bernard (24 May 2013). "First isolation of Mimivirus in a patient with pneumonia". Clinical Infectious Diseases. 57 (4): e127–e134. doi: 10.1093/cid/cit354 . PMID   23709652 – via Oxford Academic.
  35. ↑ Shah, N.; Hulsmeier, A. J.; Hochhold, N.; Neidhart, M.; Gay, S.; Hennet, T. (2013). "Exposure to Mimivirus Collagen Promotes Arthritis". Journal of Virology. 88 (2): 838–45. doi:10.1128/JVI.03141-13. PMC   3911627 . PMID   24173233.
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