Structural and Genomic Properties of the Hyperthermophilic Archaeal Virus ATV with an Extracellular Stage of the Reproductive Cycle

Prangishvili, David; Vestergaard, Gisle; Häring, Monika; Aramayo, Ricardo; Basta, Tamara; Rachel, Reinhard; Garrett, Roger A.

doi:10.1016/j.jmb.2006.04.027

Cited by 112 publications

(151 citation statements)

References 49 publications

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“…Proteins were separated in 4 to 12% sodium dodecyl sulfate (SDS)-polyacrylamide gradient gels and stained with PageBlue (Fermentas). Protein bands were analyzed by peptide mass fingerprinting with matrix-assisted laser desorption ionization-time-of-flight mass spectrometry on a Voyager DE-STR instrument (Applied Biosystems, Framingham, MA), as described earlier (32).…”

Section: Methodsmentioning

confidence: 99%

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Structure of the Acidianus Filamentous Virus 3 and Comparative Genomics of Related Archaeal Lipothrixviruses

Vestergaard

Aramayo

Basta

et al. 2008

J Virol

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Four novel filamentous viruses with double-stranded DNA genomes, namely, Acidianus filamentous virus 3 (AFV3), AFV6, AFV7, and AFV8, have been characterized from the hyperthermophilic archaeal genus Acidianus, and they are assigned to the Betalipothrixvirus genus of the family Lipothrixviridae. The structures of the approximately 2-m-long virions are similar, and one of them, AFV3, was studied in detail. It consists of a cylindrical envelope containing globular subunits arranged in a helical formation that is unique for any known double-stranded DNA virus. The envelope is 3.1 nm thick and encases an inner core with two parallel rows of protein subunits arranged like a zipper. Each end of the virion is tapered and carries three short filaments. Two major structural proteins were identified as being common to all betalipothrixviruses. The viral genomes were sequenced and analyzed, and they reveal a high level of conservation in both gene content and gene order over large regions, with this similarity extending partly to the earlier described betalipothrixvirus Sulfolobus islandicus filamentous virus. A few predicted gene products of each virus, in addition to the structural proteins, could be assigned specific functions, including a putative helicase involved in Holliday junction branch migration, a nuclease, a protein phosphatase, transcriptional regulators, and glycosyltransferases. The AFV7 genome appears to have undergone intergenomic recombination with a large section of an AFV2-like viral genome, apparently resulting in phenotypic changes, as revealed by the presence of AFV2-like termini in the AFV7 virions. Shared features of the genomes include (i) large inverted terminal repeats exhibiting conserved, regularly spaced direct repeats; (ii) a highly conserved operon encoding the two major structural proteins; (iii) multiple overlapping open reading frames, which may be indicative of gene recoding; (iv) putative 12-bp genetic elements; and (v) partial gene sequences corresponding closely to spacer sequences of chromosomal repeat clusters.

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Section: Methodsmentioning

confidence: 99%

“…The other three viruses were Acidianus rod-shaped virus (ARV1) (39), Acidianus two-tailed virus (14,32), and Acidianus bottle-shaped virus (12). In addition to these viruses, filamentous particles of a putative virus(es) of about 2 m long were observed in the enrichment culture and later were shown to replicate in a few autochthonous Acidianus strains (12).…”

mentioning

confidence: 99%

Structure of the Acidianus Filamentous Virus 3 and Comparative Genomics of Related Archaeal Lipothrixviruses

Vestergaard

Aramayo

Basta

et al. 2008

J Virol

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“…Except for a few isolated cases (4)(5)(6), it is generally presumed that these viruses persist in the host cell in a carrier state, a nonlytic relationship in which virions are continuously secreted by the still-dividing cells (7). However, the classification of crenarchaeal viruses as chronic is based on indirect experimental evidence, such as a lack of optical density (OD) decrease and absence of cellular debris in infected cultures (e.g., 8,9).…”

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confidence: 99%

A unique virus release mechanism in the Archaea

Bize

Karlsson

Ekefjärd

et al. 2009

Proc. Natl. Acad. Sci. U.S.A.

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172

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Little is known about the infection cycles of viruses infecting cells from Archaea, the third domain of life. Here, we demonstrate that the virions of the archaeal Sulfolobus islandicus rod-shaped virus 2 (SIRV2) are released from the host cell through a mechanism, involving the formation of specific cellular structures. Large pyramidal virus-induced protrusions transect the cell envelope at several positions, rupturing the S-layer; they eventually open out, thus creating large apertures through which virions escape the cell. We also demonstrate that massive degradation of the host chromosomes occurs because of virus infection, and that virion assembly occurs in the cytoplasm. Furthermore, intracellular viral DNA is visualized by flow cytometry. The results show that SIRV2 is a lytic virus, and that the host cell dies as a consequence of elaborated mechanisms orchestrated by the virus. The generation of specific cellular structures for a distinct step of virus life cycle is known in eukaryal virus-host systems but is unprecedented in cells from other domains.lysis ͉ virus factory ͉ hyperthermophile ͉ infection cycle

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“…The only viral group containing members from differing families involved the Rudiviridae viruses ARV-1 and SRV, and the unclassified fusiform viruses STSV-1 and STSV-2 (Xiang et al, 2005;Erdmann et al, 2013). A number of other archaeal viruses were found exclusively in single clusters, including ATV; 1.4% network contigs (Prangishvili et al, 2006b) and AFV-1 (1.3% network contigs; Bettstetter et al, 2003). A number of thermophilic viruses were not detected.…”

Section: Network Viral Groups: What They Representmentioning

confidence: 99%

Viral assemblage composition in Yellowstone acidic hot springs assessed by network analysis

et al. 2015

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Understanding of viral assemblage structure in natural environments remains a daunting task. Total viral assemblage sequencing (for example, viral metagenomics) provides a tractable approach. However, even with the availability of next-generation sequencing technology it is usually only possible to obtain a fragmented view of viral assemblages in natural ecosystems. In this study, we applied a network-based approach in combination with viral metagenomics to investigate viral assemblage structure in the high temperature, acidic hot springs of Yellowstone National Park, USA. Our results show that this approach can identify distinct viral groups and provide insights into the viral assemblage structure. We identified 110 viral groups in the hot springs environment, with each viral group likely representing a viral family at the sub-family taxonomic level. Most of these viral groups are previously unknown DNA viruses likely infecting archaeal hosts. Overall, this study demonstrates the utility of combining viral assemblage sequencing approaches with network analysis to gain insights into viral assemblage structure in natural ecosystems.

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Structural and Genomic Properties of the Hyperthermophilic Archaeal Virus ATV with an Extracellular Stage of the Reproductive Cycle

Cited by 112 publications

References 49 publications

Structure of the Acidianus Filamentous Virus 3 and Comparative Genomics of Related Archaeal Lipothrixviruses

Structure of the Acidianus Filamentous Virus 3 and Comparative Genomics of Related Archaeal Lipothrixviruses

A unique virus release mechanism in the Archaea

Viral assemblage composition in Yellowstone acidic hot springs assessed by network analysis

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