Zamilon virophage

Zamilon virophage
Electron micrograph of a virus factory in an amoeba co-infected with Zamilon (small particles) and Mont1. Arrows show abnormal Mont1 particles (scale bar: 0.1 μm)
Virus classification
Group:	Group I (dsDNA)
Order:	Unassigned
Family:	Lavidaviridae (proposed)
Genus:	Sputnikvirus (proposed)
Species:	Mimivirus-dependent virus Zamilon (proposed)

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.^[1] 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".^[2] 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.

All known virophages are associated with helpers in the giant DNA virus family Mimiviridae. Zamilon is restricted in its range of helper viruses; it can be supported by viruses from Mimivirus-like Mimiviridae lineages B and C, but not from lineage A. Unlike the Sputnik virophage, Zamilon does not appear to impair the replication of its helper virus.

Discovery and related virophages

Electron micrograph of virus factory in an amoeba co-infected with Zamilon and Mont1 (scale bar: 0.1 μm)

Zamilon was discovered in 2013, in Acanthamoeba polyphaga amoebae co-infected with the giant virus Mont1, isolated from a Tunisian soil sample.^[1][2][3] As of 2015, Zamilon is one of three virophages to have been isolated physically, the others being Sputnik and Mavirus; several other virophage DNAs have been discovered using metagenomics but have not been characterised physically.^[1][4] A related strain, named Zamilon 2, was discovered by metagenomic analysis of a North American poplar wood chip bioreactor in 2015.^[5] Another virophage, Rio Negro, is also closely related to Sputnik.^[1]

Taxonomy

The species "Mimivirus-dependent virus Zamilon", containing the single isolate "Zamilon virus", has been proposed. The genus "Sputnikvirus" in the family "Lavidaviridae" has been proposed to contain Zamilon and other Sputnik-like virophages. As of 2016, these assignments have yet to be ratified by the International Committee on Taxonomy of Viruses.^[1]

Virology

A Zamilon virion is spherical with a diameter of 50–60 nm, and is similar in appearance to those of Sputnik and Mavirus.^[2] Its circular double-stranded DNA genome is 17,276 base pairs in length.^[1][2] Virophages typically have particles whose diameter is in the range 40–80 nm, with genomes in the range 17–30 kb.^[1] The virophage most closely related to Zamilon is Sputnik, with which it shares 76% sequence identity, although part of the Zamilon sequence is reversed compared with Sputnik.^[1][2] Zamilon's DNA is rich in adenine and thymine bases; the proportion of guanine and cytosine bases is 29.7%.^[2]

Open reading frames

The Zamilon genome is predicted to contain 20 open reading frames (ORFs), of between 222 bases and 2337 bases in length. Of the 20 predicted products, 15 are similar to those of Sputnik, and three are similar to Mimiviridae: two to Megavirus chilensis and another to the transpoviron, Moumouvirus monve. One Zamilon ORF additionally shows some similarity to Mavirus, and another to Organic Lake virophage and a Phaeocystis globosa virophage, which are both associated with algae rather than amoebae. The remaining two predicted products show limited similarity to other known proteins. Putative functions of the products include transposase, helicase, integrase, cysteine protease, DNA primase–polymerase and DNA-packaging ATPase enzymes, major and minor capsid proteins, a structural protein and a collagen-like protein.^[2] ORF6 is very similar to the Sputnik major capsid protein, which has a double "jelly-roll" fold.^[2][6]

ORF[lower-alpha 1]	Predicted size (amino acids)	Related product	Similarity (%)	Predicted function
1	111	none	–	–
2	73	none	–	–
3	135	Megavirus chilensis mg3 gene product	67	–
4	221	Sputnik virophage 2 putative IS3 family transposase A protein	40	putative transposase
5	376	Sputnik virophage 2 minor virion protein	66	minor virion protein
6	609	Sputnik virophage capsid protein V20	86	capsid protein
7	442	Sputnik virophage V21	70	–
8	81	Moumouvirus monve hypothetical protein tv_L8	72	–
9	778	Sputnik virophage V13	67	putative helicase
10	168	Sputnik virophage V11	53	–
11	247	Sputnik virophage V10	58	putative integrase
12	175	Sputnik virophage V9	77	–
13	184	Sputnik virophage V8	71	structural protein
14	241	Sputnik virophage V7	80	–
15	305	Sputnik virophage V6	75	collagen-like protein
16	121	Sputnik virophage V5	59	–
17	133	Sputnik virophage V4	55	–
18	245	Sputnik virophage V3	81	DNA-packaging ATPase
19	147	Megavirus chilensis mg664 gene product	50	–
20	147	Sputnik virophage V1	60	–

Life cycle and helper virus

Like all other virophages, Zamilon replicates in the cytoplasm, within the virus factory of its helper, which acts as its host.^[2] Zamilon was first isolated in association with Mont1, a Mimivirus-like Mimiviridae classified in lineage C by its polymerase B gene sequence. The virophage has subsequently been shown to be capable of replicating in association with Moumouvirus and Monve, two Mimiviridae from lineage B, as well as with Terra1 and Courdo11 from lineage C; however, it cannot replicate in association with either Mimivirus or Mamavirus, classified as lineage A.^[2][7] This is unlike Sputnik, which can replicate in association with any Mimivirus-like member of Mimiviridae.^[2]

Zamilon does not appear to inhibit the ability of its helper virus to replicate significantly, nor to lyse its host amoebae cells. Although the helper virus formed a high proportion of abnormal virions in the presence of Zamilon, these were also observed at a comparable level in the virophage's absence.^[2] This is again unlike Sputnik, which reduces its helper virus's infectivity, inhibits its lysis of amoeba, and is associated with the generation of an increased proportion of abnormal Mimiviridae virions.^[1][2] Bernard La Scola and colleagues, who isolated both Sputnik and Zamilon, state that, if confirmed, this "would question the concept of virophage", which has been considered to be differentiated from most other satellite viruses in having a deleterious effect on its helper virus.^[2]

References

1. All data from Gaia et al.^[2]

1. Krupovic M, Kuhn JH, Fischer MG (2016), "A classification system for virophages and satellite viruses" (PDF), Archives of Virology 161: 233–47, doi:10.1007/s00705-015-2622-9
2. 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: e94923, doi:10.1371/journal.pone.0094923
3. Boughalmi M, Saadi H, Pagnier I, Colson P, Fournous G, Raoult D, La Scola B (2013), "High-throughput isolation of giant viruses of the Mimiviridae and Marseilleviridae families in the Tunisian environment", Environmental Microbiology 15: :2000–7, doi:10.1111/1462-2920.12068
4. Yutin N, Kapitonov VV, Koonin EV (2015), "A new family of hybrid virophages from an animal gut metagenome" (PDF), Biology Direct 10: 19, doi:10.1186/s13062-015-0054-9
5. Bekliz M, Verneau J, Benamar S, Raoult D, La Scola B, Colson P (2015), "A New Zamilon-like Virophage Partial Genome Assembled from a Bioreactor Metagenome", Frontiers in Microbiology 6: 1308, doi:10.3389/fmicb.2015.01308
6. Zhang X, Sun S, Xiang Y, Wong J, Klose T, Raoult D, Rossmann MG (2012), "Structure of Sputnik, a virophage, at 3.5-Å resolution", Proceedings of the National Academy of Sciences of the United States of America 109: 18431–36, doi:10.1073/pnas.1211702109
7. Aherfia S, La Scola B, Pagniera I, Raoult D, Colson P (2014), "The expanding family Marseilleviridae" (PDF), Virology, 466–467: 27–37, doi:10.1016/j.virol.2014.07.014

External links

• Genbank accession no. NC_022990.1