dna viruses

Summary

Summary: Viruses whose nucleic acid is DNA.

Top Publications

  1. Mochizuki T, Krupovic M, Pehau Arnaudet G, Sako Y, Forterre P, Prangishvili D. Archaeal virus with exceptional virion architecture and the largest single-stranded DNA genome. Proc Natl Acad Sci U S A. 2012;109:13386-91 pubmed publisher
    ..pernix growth. The genome content of ACV is in line with its unique morphology and confirms that ACV is not closely related to any known virus...
  2. Monier A, Pagarete A, de Vargas C, Allen M, Read B, Claverie J, et al. Horizontal gene transfer of an entire metabolic pathway between a eukaryotic alga and its DNA virus. Genome Res. 2009;19:1441-9 pubmed publisher
  3. Meehan A, Poeschla E. Chromatin tethering and retroviral integration: recent discoveries and parallels with DNA viruses. Biochim Biophys Acta. 2010;1799:182-91 pubmed publisher
    ..Intriguingly, similar chromatin tethering mechanisms have been described for other retroelements and for large DNA viruses. Here we review the evidence supporting the LEDGF/p75 tethering model and consider parallels with these other ..
  4. van Beurden S, Forlenza M, Westphal A, Wiegertjes G, Haenen O, Engelsma M. The alloherpesviral counterparts of interleukin 10 in European eel and common carp. Fish Shellfish Immunol. 2011;31:1211-7 pubmed publisher
    ..The presence and structural conservation of these alloherpesviral IL-10 genes suggest that they might play an important role in the evolution of pathogenesis...
  5. Van Etten J. Another really, really big virus. Viruses. 2011;3:32-46 pubmed publisher
    ..Bioinformatic analyses of metagenomes of aqueous samples indicate that large DNA viruses are quite common in nature and await discovery...
  6. Moreira D, Brochier Armanet C. Giant viruses, giant chimeras: the multiple evolutionary histories of Mimivirus genes. BMC Evol Biol. 2008;8:12 pubmed publisher
  7. Filee J. Lateral gene transfer, lineage-specific gene expansion and the evolution of Nucleo Cytoplasmic Large DNA viruses. J Invertebr Pathol. 2009;101:169-71 pubmed publisher
    Nucleo Cytoplasmic Large DNA viruses (NCLDVs) are a diverse group that infects a wide range of eukaryotic hosts (for example, vertebrates, insects, protists,...) and also show a huge range in genome size (between 100kb and 1.2Mb)...
  8. Ghigo E, Kartenbeck J, Lien P, Pelkmans L, Capo C, Mege J, et al. Ameobal pathogen mimivirus infects macrophages through phagocytosis. PLoS Pathog. 2008;4:e1000087 pubmed publisher
    ..Altogether, our data demonstrated that APMV enters macrophages through phagocytosis, a new pathway for virus entry in cells. This reinforces the paradigm that intra-amoebal pathogens have the potential to infect macrophages...
  9. Liu S, Sanchez D, Aliyari R, Lu S, Cheng G. Systematic identification of type I and type II interferon-induced antiviral factors. Proc Natl Acad Sci U S A. 2012;109:4239-44 pubmed publisher
    ..These results delineate common and distinct sets of type I and type II IFN-induced genes as well as identify unique ISGs that have either broad or specific antiviral effects on these viruses. ..

More Information

Publications93

  1. Raj V, Fournier G, Rakus K, Ronsmans M, Ouyang P, Michel B, et al. Skin mucus of Cyprinus carpio inhibits cyprinid herpesvirus 3 binding to epidermal cells. Vet Res. 2011;42:92 pubmed publisher
    ..The present study demonstrates that skin mucus removal and epidermal lesions enhance CyHV-3 entry in carp. It highlights the role of fish skin mucus as an innate immune protection against viral epidermal entry. ..
  2. Fournier G, Boutier M, Stalin Raj V, Mast J, Parmentier E, Vanderwalle P, et al. Feeding Cyprinus carpio with infectious materials mediates cyprinid herpesvirus 3 entry through infection of pharyngeal periodontal mucosa. Vet Res. 2012;43:6 pubmed publisher
    ..They led to comparable clinical signs and mortality rate. The results of the present study suggest that, based on epidemiological conditions, CyHV-3 can enter carp either by skin or periodontal pharyngeal mucosal infection...
  3. Rosario K, Marinov M, Stainton D, Kraberger S, Wiltshire E, Collings D, et al. Dragonfly cyclovirus, a novel single-stranded DNA virus discovered in dragonflies (Odonata: Anisoptera). J Gen Virol. 2011;92:1302-8 pubmed publisher
    ..To our knowledge, this is the first report of a circular ssDNA virus identified in insects, and the data may help elucidate evolutionary links among novel Circoviridae recently identified in animals and environmental samples...
  4. Hohn T, Vazquez F. RNA silencing pathways of plants: silencing and its suppression by plant DNA viruses. Biochim Biophys Acta. 2011;1809:588-600 pubmed publisher
    ..made on understanding the defense and counter-defense strategies evolved in the arms race between plants and DNA viruses on both the nuclear and the cytoplasmic front...
  5. Renault T, Moreau P, Faury N, Pépin J, Segarra A, Webb S. Analysis of clinical ostreid herpesvirus 1 (Malacoherpesviridae) specimens by sequencing amplified fragments from three virus genome areas. J Virol. 2012;86:5942-7 pubmed publisher
    ..Although ORF4 appeared to be the most polymorphic genome area, distinguishing several genogroups, ORF35, -36, -37, and -38 and ORF42 and -43 also showed variations useful in grouping subpopulations of this virus. ..
  6. La Scola B, Desnues C, Pagnier I, Robert C, Barrassi L, Fournous G, et al. The virophage as a unique parasite of the giant mimivirus. Nature. 2008;455:100-4 pubmed publisher
    ..Considering its functional analogy with bacteriophages, we classify this virus as a virophage. The virophage could be a vehicle mediating lateral gene transfer between giant viruses...
  7. Boyer M, Gimenez G, Suzan Monti M, Raoult D. Classification and determination of possible origins of ORFans through analysis of nucleocytoplasmic large DNA viruses. Intervirology. 2010;53:310-20 pubmed publisher
    ..Nucleocytoplasmic large DNA viruses (NCLDVs) harbor great numbers of ORFs with a high number consisting of ORFans...
  8. Ng T, Willner D, Lim Y, Schmieder R, Chau B, Nilsson C, et al. Broad surveys of DNA viral diversity obtained through viral metagenomics of mosquitoes. PLoS ONE. 2011;6:e20579 pubmed publisher
    ..This study utilized vector-enabled metagenomics (VEM) to provide a snapshot of the diversity of DNA viruses present in three mosquito samples from San Diego, California...
  9. Sikorski A, Massaro M, Kraberger S, Young L, Smalley D, Martin D, et al. Novel myco-like DNA viruses discovered in the faecal matter of various animals. Virus Res. 2013;177:209-16 pubmed publisher
    ..Based on the similarities to SsHADV-1 and Rep-like sequences found in fungal genomes, these novel gemycircularviruses may infect fungi. ..
  10. Foulongne V, Sauvage V, HEBERT C, Dereure O, Cheval J, Gouilh M, et al. Human skin microbiota: high diversity of DNA viruses identified on the human skin by high throughput sequencing. PLoS ONE. 2012;7:e38499 pubmed publisher
    ..The potential involvement of these viruses, alone or in combination, in skin proliferative disorders and oncogenesis is another crucial issue to be elucidated...
  11. Raoult D, Forterre P. Redefining viruses: lessons from Mimivirus. Nat Rev Microbiol. 2008;6:315-9 pubmed publisher
  12. Kariithi H, Ince I, Boeren S, Vervoort J, Bergoin M, van Oers M, et al. Proteomic analysis of Glossina pallidipes salivary gland hypertrophy virus virions for immune intervention in tsetse fly colonies. J Gen Virol. 2010;91:3065-74 pubmed publisher
    ..This result suggests that immune intervention of viral infections in colonies of G. pallidipes is a realistic option...
  13. Claverie J, Grzela R, Lartigue A, Bernadac A, Nitsche S, Vacelet J, et al. Mimivirus and Mimiviridae: giant viruses with an increasing number of potential hosts, including corals and sponges. J Invertebr Pathol. 2009;101:172-80 pubmed publisher
    ..These findings revived the debate on the origin of DNA viruses, and the role they might have played in the emergence of eukaryotes...
  14. Koonin E, Yutin N. Origin and evolution of eukaryotic large nucleo-cytoplasmic DNA viruses. Intervirology. 2010;53:284-92 pubmed publisher
    The nucleo-cytoplasmic large DNA viruses (NCLDV) constitute an apparently monophyletic group that consists of 6 families of viruses infecting a broad variety of eukaryotes...
  15. Liu H, Fu Y, Li B, Yu X, Xie J, Cheng J, et al. Widespread horizontal gene transfer from circular single-stranded DNA viruses to eukaryotic genomes. BMC Evol Biol. 2011;11:276 pubmed publisher
    ..Our discovery extends the host range of circular ssDNA viruses and sheds light on the origin and evolution of these viruses. It also suggests that ssDNA viruses act as an unforeseen source of genetic innovation in their hosts. ..
  16. Nanda S, Jayan G, Voulgaropoulou F, Sierra Honigmann A, Uhlenhaut C, McWatters B, et al. Universal virus detection by degenerate-oligonucleotide primed polymerase chain reaction of purified viral nucleic acids. J Virol Methods. 2008;152:18-24 pubmed publisher
    ..This method was used to detect a variety of DNA viruses (including HSV, VZV, SV40, AAV, and EBV) and RNA viruses (including HTLV-I, HTLV-II, influenza, and poliovirus),..
  17. Blinkova O, Victoria J, Li Y, Keele B, Sanz C, Ndjango J, et al. Novel circular DNA viruses in stool samples of wild-living chimpanzees. J Gen Virol. 2010;91:74-86 pubmed publisher
    ..Sequences encoding proteins distantly related to the replicase protein of single-stranded circular DNA viruses were identified. Inverse PCR was used to amplify and sequence multiple small circular DNA viral genomes...
  18. Rathinam V, Jiang Z, Waggoner S, Sharma S, Cole L, Waggoner L, et al. The AIM2 inflammasome is essential for host defense against cytosolic bacteria and DNA viruses. Nat Immunol. 2010;11:395-402 pubmed publisher
    ..Collectively, our observations demonstrate the importance of AIM2 in the sensing of both bacterial and viral pathogens and in triggering innate immunity...
  19. Firth C, Kitchen A, Shapiro B, Suchard M, Holmes E, Rambaut A. Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses. Mol Biol Evol. 2010;27:2038-51 pubmed publisher
    Double-stranded (ds) DNA viruses are often described as evolving through long-term codivergent associations with their hosts, a pattern that is expected to be associated with low rates of nucleotide substitution...
  20. Fabian M, Baumer A, Steinhagen D. Do wild fish species contribute to the transmission of koi herpesvirus to carp in hatchery ponds?. J Fish Dis. 2013;36:505-14 pubmed publisher
    ..Furthermore, virus transfer to naive carp was observed after a period of cohabitation. Cyprinid and non-cyprinid wild fish can therefore be considered as an epidemiological risk for pond carp farms. ..
  21. Ng T, Manire C, Borrowman K, Langer T, Ehrhart L, Breitbart M. Discovery of a novel single-stranded DNA virus from a sea turtle fibropapilloma by using viral metagenomics. J Virol. 2009;83:2500-9 pubmed publisher
    ..This study demonstrates the potential of viral metagenomics for discovering novel viruses directly from animal tissue, which can enhance our understanding of viral evolution and diversity...
  22. Desnues C, Raoult D. Inside the lifestyle of the virophage. Intervirology. 2010;53:293-303 pubmed publisher
    ..This work provides new insight into the Sputnik replication cycle with another giant virus and confirms that Sputnik is a virophage. It shows new dimensions of the interactions existing among giant viruses. ..
  23. Legendre M, Bartoli J, Shmakova L, Jeudy S, Labadie K, Adrait A, et al. Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology. Proc Natl Acad Sci U S A. 2014;111:4274-9 pubmed publisher
    The largest known DNA viruses infect Acanthamoeba and belong to two markedly different families. The Megaviridae exhibit pseudo-icosahedral virions up to 0.7 ?m in diameter and adenine-thymine (AT)-rich genomes of up to 1...
  24. Cheung A, Ng T, Lager K, Bayles D, Alt D, Delwart E, et al. A divergent clade of circular single-stranded DNA viruses from pig feces. Arch Virol. 2013;158:2157-62 pubmed publisher
    ..Furthermore, these viruses also exhibit three additional overlapping open reading frames in the large intergenic region between the capsid and replication initiator protein genes. ..
  25. Hingamp P, Grimsley N, Acinas S, Clerissi C, Subirana L, Poulain J, et al. Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes. ISME J. 2013;7:1678-95 pubmed publisher
    Nucleo-cytoplasmic large DNA viruses (NCLDVs) constitute a group of eukaryotic viruses that can have crucial ecological roles in the sea by accelerating the turnover of their unicellular hosts or by causing diseases in animals...
  26. Jeanniard A, Dunigan D, Gurnon J, Agarkova I, Kang M, Vitek J, et al. Towards defining the chloroviruses: a genomic journey through a genus of large DNA viruses. BMC Genomics. 2013;14:158 pubmed publisher
    ..These new data allowed us to analyze the genomic landscape of 41 chloroviruses, which revealed some remarkable features about these viruses...
  27. Buchkovich N, Yu Y, Zampieri C, Alwine J. The TORrid affairs of viruses: effects of mammalian DNA viruses on the PI3K-Akt-mTOR signalling pathway. Nat Rev Microbiol. 2008;6:266-75 pubmed publisher
    The successful replication of mammalian DNA viruses requires that they gain control of key cellular signalling pathways that affect broad aspects of cellular macromolecular synthesis, metabolism, growth and survival...
  28. Filee J, Pouget N, Chandler M. Phylogenetic evidence for extensive lateral acquisition of cellular genes by Nucleocytoplasmic large DNA viruses. BMC Evol Biol. 2008;8:320 pubmed publisher
    Nucleo-Cytoplasmic Large DNA viruses (NCLDV), a diverse group that infects a wide range of eukaryotic hosts, exhibit a large heterogeneity in genome size (between 100 kb and 1...
  29. Bigot Y, Renault S, Nicolas J, Moundras C, Demattéi M, Samain S, et al. Symbiotic virus at the evolutionary intersection of three types of large DNA viruses; iridoviruses, ascoviruses, and ichnoviruses. PLoS ONE. 2009;4:e6397 pubmed publisher
  30. Biacchesi S, LeBerre M, Lamoureux A, Louise Y, Lauret E, Boudinot P, et al. Mitochondrial antiviral signaling protein plays a major role in induction of the fish innate immune response against RNA and DNA viruses. J Virol. 2009;83:7815-27 pubmed publisher
    ..This report provides the first demonstration that teleost fish possess a functional RLR pathway in which MAVS may play a central role in the induction of the innate immune response...
  31. de Souza R, Iyer L, Aravind L. Diversity and evolution of chromatin proteins encoded by DNA viruses. Biochim Biophys Acta. 2010;1799:302-18 pubmed publisher
    Double-stranded DNA viruses display a great variety of proteins that interact with host chromatin...
  32. Boughalmi M, Pagnier I, Aherfi S, Colson P, Raoult D, La Scola B. First isolation of a Marseillevirus in the Diptera Syrphidae Eristalis tenax. Intervirology. 2013;56:386-94 pubmed publisher
    ..Giant viruses and amoebae are common in freshwater, where they can coexist with various insects. We screened insect larvae to detect giant viruses using a high-throughput method...
  33. Diemer G, Stedman K. A novel virus genome discovered in an extreme environment suggests recombination between unrelated groups of RNA and DNA viruses. Biol Direct. 2012;7:13 pubmed publisher
    ..Metagenomics offers a potential means of establishing a more comprehensive view of viral evolution as vast amounts of new sequence data becomes available for comparative analysis...
  34. Monier A, Claverie J, Ogata H. Taxonomic distribution of large DNA viruses in the sea. Genome Biol. 2008;9:R106 pubmed publisher
    ..In this study, we used a new approach--'phylogenetic mapping'--to obtain a comprehensive picture of the taxonomic distribution of large DNA viruses represented in the Sorcerer II Global Ocean Sampling Expedition metagenomic data set.
  35. LeFeuvre P, Lett J, Varsani A, Martin D. Widely conserved recombination patterns among single-stranded DNA viruses. J Virol. 2009;83:2697-707 pubmed publisher
    ..Collectively, these results imply that natural selection acting against viruses expressing recombinant proteins is a major determinant of nonrandom recombination breakpoint distributions observable in most ssDNA virus families...
  36. Fernandez A, Rosales C, Lopez Nieva P, Grana O, Ballestar E, Ropero S, et al. The dynamic DNA methylomes of double-stranded DNA viruses associated with human cancer. Genome Res. 2009;19:438-51 pubmed publisher
    ..In this article, we provide the first complete DNA methylomes of double-stranded DNA viruses associated with human cancer that might provide important clues to help us understand the described process...
  37. Katzourakis A, Gifford R. Endogenous viral elements in animal genomes. PLoS Genet. 2010;6:e1001191 pubmed publisher
    ..of double-stranded RNA, reverse-transcribing DNA, and segmented RNA viruses, and the first endogenous DNA viruses in mammalian genomes...
  38. López Bueno A, Tamames J, Velázquez D, Moya A, Quesada A, Alcami A. High diversity of the viral community from an Antarctic lake. Science. 2009;326:858-61 pubmed publisher
  39. Fischer M, Suttle C. A virophage at the origin of large DNA transposons. Science. 2011;332:231-4 pubmed publisher
    ..that, on the basis of genetic homology, likely represents an evolutionary link between double-stranded DNA viruses and Maverick/Polinton eukaryotic DNA transposons...
  40. Willner D, Haynes M, Furlan M, Hanson N, Kirby B, Lim Y, et al. Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung. Am J Respir Cell Mol Biol. 2012;46:127-31 pubmed publisher
  41. Thurber R, Haynes M, Breitbart M, Wegley L, Rohwer F. Laboratory procedures to generate viral metagenomes. Nat Protoc. 2009;4:470-83 pubmed publisher
    ..Overall, a sample can be processed to isolate viral nucleic acids suitable for high-throughput sequencing in approximately 1 week...
  42. Steward G, Preston C. Analysis of a viral metagenomic library from 200 m depth in Monterey Bay, California constructed by direct shotgun cloning. Virol J. 2011;8:287 pubmed publisher
    ..Here we report on the construction and analysis of a viral metagenome prepared from below the euphotic zone in a temperate, eutrophic bay of coastal California...
  43. Pagnier I, Reteno D, Saadi H, Boughalmi M, Gaia M, Slimani M, et al. A decade of improvements in Mimiviridae and Marseilleviridae isolation from amoeba. Intervirology. 2013;56:354-63 pubmed publisher
  44. Abarshi M, Mohammed I, Jeremiah S, Legg J, Kumar P, Hillocks R, et al. Multiplex RT-PCR assays for the simultaneous detection of both RNA and DNA viruses infecting cassava and the common occurrence of mixed infections by two cassava brown streak viruses in East Africa. J Virol Methods. 2012;179:176-84 pubmed publisher
    ..These protocols have implications for diagnosis and epidemiological studies on cassava virus diseases in Eastern Africa...
  45. Monier A, Claverie J, Ogata H. Horizontal gene transfer and nucleotide compositional anomaly in large DNA viruses. BMC Genomics. 2007;8:456 pubmed
    b>DNA viruses have a wide range of genome sizes (5 kb up to 1.2 Mb, compared to 0.16 Mb to 1.5 Mb for obligate parasitic bacteria) that do not correlate with their virulence or the taxonomic distribution of their hosts...
  46. Zauberman N, Mutsafi Y, Halevy D, Shimoni E, Klein E, Xiao C, et al. Distinct DNA exit and packaging portals in the virus Acanthamoeba polyphaga mimivirus. PLoS Biol. 2008;6:e114 pubmed publisher
    Icosahedral double-stranded DNA viruses use a single portal for genome delivery and packaging...
  47. Krupovic M. Recombination between RNA viruses and plasmids might have played a central role in the origin and evolution of small DNA viruses. Bioessays. 2012;34:867-70 pubmed publisher
    ..It also substantiates the hypothesis that certain groups of DNA viruses could have emerged from plasmids via acquisition of capsid protein-coding genes from RNA viruses.
  48. Ouyang P, Rakus K, Boutier M, Reschner A, Leroy B, Ronsmans M, et al. The IL-10 homologue encoded by cyprinid herpesvirus 3 is essential neither for viral replication in vitro nor for virulence in vivo. Vet Res. 2013;44:53 pubmed publisher
    ..All together, the results of the present study demonstrate that the IL-10 homologue encoded by CyHV-3 is essential neither for viral replication in vitro nor for virulence in common carp. ..
  49. Yoon H, Price D, Stepanauskas R, Rajah V, Sieracki M, Wilson W, et al. Single-cell genomics reveals organismal interactions in uncultivated marine protists. Science. 2011;332:714-7 pubmed publisher
    ..from the other two cells, both of which contained non-eukaryote DNA derived from marine Bacteroidetes and large DNA viruses. By using shotgun sequencing of uncultured marine picobiliphytes, we revealed the distinct interactions of ..
  50. Lietze V, Abd Alla A, Vreysen M, Geden C, Boucias D. Salivary gland hypertrophy viruses: a novel group of insect pathogenic viruses. Annu Rev Entomol. 2011;56:63-80 pubmed publisher
    Salivary gland hypertrophy viruses (SGHVs) are a unique, unclassified group of entomopathogenic, double-stranded DNA viruses that have been reported from three genera of Diptera...
  51. de Andrade Zanotto P, Krakauer D. Complete genome viral phylogenies suggests the concerted evolution of regulatory cores and accessory satellites. PLoS ONE. 2008;3:e3500 pubmed publisher
    We consider the concerted evolution of viral genomes in four families of DNA viruses. Given the high rate of horizontal gene transfer among viruses and their hosts, it is an open question as to how representative particular genes are of ..
  52. Williams T, Embley T, Heinz E. Informational gene phylogenies do not support a fourth domain of life for nucleocytoplasmic large DNA viruses. PLoS ONE. 2011;6:e21080 pubmed publisher
    ..Our results suggest that a fourth domain is not required to explain the available sequence data...
  53. Ritchie D, Piekarz R, Blombery P, Karai L, Pittaluga S, Jaffe E, et al. Reactivation of DNA viruses in association with histone deacetylase inhibitor therapy: a case series report. Haematologica. 2009;94:1618-22 pubmed publisher
    ..Reactivation of latent DNA viruses including EBV, HBV, and VZV is well described as a consequence of the immune suppression associated with ..
  54. Ogata H, Toyoda K, Tomaru Y, Nakayama N, Shirai Y, Claverie J, et al. Remarkable sequence similarity between the dinoflagellate-infecting marine girus and the terrestrial pathogen African swine fever virus. Virol J. 2009;6:178 pubmed publisher
    ..previously suggested that HcDNAV might be a member of the family Phycodnaviridae of Nucleo-Cytoplasmic Large DNA Viruses (NCLDVs), though no supporting sequence data was available...
  55. Kim K, Chang H, Nam Y, Roh S, Kim M, Sung Y, et al. Amplification of uncultured single-stranded DNA viruses from rice paddy soil. Appl Environ Microbiol. 2008;74:5975-85 pubmed publisher
    ..By the MDA method, the diversity of both single-stranded DNA (ssDNA) viruses and double-stranded DNA viruses could be investigated at the same time...
  56. Raoult D, Boyer M. Amoebae as genitors and reservoirs of giant viruses. Intervirology. 2010;53:321-9 pubmed publisher
    ..We conclude that phagocytic protists continuously generate new species with chimeric repertoires that may succeed later if adapted to the environmental conditions and selected in a specific niche...
  57. Pietil M, Roine E, Paulin L, Kalkkinen N, Bamford D. An ssDNA virus infecting archaea: a new lineage of viruses with a membrane envelope. Mol Microbiol. 2009;72:307-19 pubmed publisher
    ..HRPV-1 virion may represent commonly used virion architecture, and it seems that structure-based virus lineages may be extended to non-icosahedral viruses...
  58. Muhire B, Golden M, Murrell B, Lefeuvre P, Lett J, Gray A, et al. Evidence of pervasive biologically functional secondary structures within the genomes of eukaryotic single-stranded DNA viruses. J Virol. 2014;88:1972-89 pubmed publisher
    ..Lastly, we provide examples of various highly conserved but completely uncharacterized structural elements that likely have important functions within some of the ssDNA virus genomes analyzed here. ..
  59. Colson P, Raoult D. Gene repertoire of amoeba-associated giant viruses. Intervirology. 2010;53:330-43 pubmed publisher
    ..Mimivirus and Marseillevirus have been classified in the nucleo-cytoplasmic large DNA viruses (NCLDVs) class. Their genomes are the largest and fifth largest viral genomes sequenced so far...
  60. Walsh D. Manipulation of the host translation initiation complex eIF4F by DNA viruses. Biochem Soc Trans. 2010;38:1511-6 pubmed publisher
    ..Although inactivated by many viruses to inhibit host translation, a growing number of DNA viruses are being found to employ diverse strategies to stimulate eIF4F activity in infected cells and maximize viral ..
  61. Byrne D, Grzela R, Lartigue A, Audic S, Chenivesse S, Encinas S, et al. The polyadenylation site of Mimivirus transcripts obeys a stringent 'hairpin rule'. Genome Res. 2009;19:1233-42 pubmed publisher
    ..The precise molecular mechanisms implementing the hairpin rule into the 3'-end processing of Mimivirus pre-mRNAs remain to be elucidated...
  62. Kim M, Park E, Roh S, Bae J. Diversity and abundance of single-stranded DNA viruses in human feces. Appl Environ Microbiol. 2011;77:8062-70 pubmed publisher
  63. Abd Alla A, Cousserans F, Parker A, Jehle J, Parker N, Vlak J, et al. Genome analysis of a Glossina pallidipes salivary gland hypertrophy virus reveals a novel, large, double-stranded circular DNA virus. J Virol. 2008;82:4595-611 pubmed publisher
    ..of type B and appears to be phylogenetically distant from all DNA polymerases encoded by large double-stranded DNA viruses. The majority of the remaining ORFs could not be assigned by sequence comparison...
  64. Azza S, Cambillau C, Raoult D, Suzan Monti M. Revised Mimivirus major capsid protein sequence reveals intron-containing gene structure and extra domain. BMC Mol Biol. 2009;10:39 pubmed publisher
    ..This result led us to investigate the L425 gene structure and the biochemical properties of the complete APM major Capsid protein...
  65. Rosario K, Duffy S, Breitbart M. A field guide to eukaryotic circular single-stranded DNA viruses: insights gained from metagenomics. Arch Virol. 2012;157:1851-71 pubmed
    ..Metagenomic discovery of ssDNA viruses has created both a challenge to current taxonomic classification schemes and an opportunity to revisit hypotheses regarding the evolutionary history of these viruses...
  66. Roux S, Enault F, Bronner G, Vaulot D, Forterre P, Krupovic M. Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses. Nat Commun. 2013;4:2700 pubmed publisher
    ..We suggest that parasitic and symbiotic interactions between unicellular eukaryotes were central for the emergence of CHIVs and that such turbulent evolution was primarily dictated by incongruence between the CP and Rep proteins. ..
  67. Wang Y, Jehle J. Nudiviruses and other large, double-stranded circular DNA viruses of invertebrates: new insights on an old topic. J Invertebr Pathol. 2009;101:187-93 pubmed publisher
    ..that nudiviruses and baculoviruses derived from a common ancestor and are evolutionarily related to other large DNA viruses such as the insect-specific salivary gland hypertrophy virus (SGHV) and the marine white spot syndrome virus (..
  68. Filee J, Chandler M. Convergent mechanisms of genome evolution of large and giant DNA viruses. Res Microbiol. 2008;159:325-31 pubmed publisher
    ..These results argue against the hypothesis that giant viruses derive from a regressive cell...
  69. Turnell A, Grand R. DNA viruses and the cellular DNA-damage response. J Gen Virol. 2012;93:2076-97 pubmed publisher
    ..The object of this review is to consider how DNA viruses have evolved to manage the function of three principal DNA damage-response pathways controlled by the three ..
  70. Abd Alla A, Kariithi H, Parker A, Robinson A, Kiflom M, Bergoin M, et al. Dynamics of the salivary gland hypertrophy virus in laboratory colonies of Glossina pallidipes (Diptera: Glossinidae). Virus Res. 2010;150:103-10 pubmed publisher
  71. Fischer M, Allen M, Wilson W, Suttle C. Giant virus with a remarkable complement of genes infects marine zooplankton. Proc Natl Acad Sci U S A. 2010;107:19508-13 pubmed publisher
    ..CroV is a highly complex marine virus and the only virus studied in genetic detail that infects one of the major groups of predators in the oceans...
  72. Hughes A, Hughes M. More effective purifying selection on RNA viruses than in DNA viruses. Gene. 2007;404:117-25 pubmed
    ..viruses, our analyses revealed stronger evidence of the action of purifying selection in RNA viruses than in DNA viruses. The ratio of nonsynonymous to synonymous nucleotide diversity was significantly lower in RNA viruses than in ..
  73. Tamaki H, Zhang R, Angly F, Nakamura S, Hong P, Yasunaga T, et al. Metagenomic analysis of DNA viruses in a wastewater treatment plant in tropical climate. Environ Microbiol. 2012;14:441-52 pubmed publisher
    ..Viruses in WWTP and the discharged ones can have potential impacts on the functioning of the wastewater treatment system and on the dynamics of microbial community in the surrounding aquatic environments respectively...
  74. Abergel C, Rudinger Thirion J, Giege R, Claverie J. Virus-encoded aminoacyl-tRNA synthetases: structural and functional characterization of mimivirus TyrRS and MetRS. J Virol. 2007;81:12406-17 pubmed
    ..does not suggest that they have been acquired recently by horizontal gene transfer from a cellular host but rather militates in favor of an intricate evolutionary relationship between large DNA viruses and ancestral eukaryotes.
  75. Tomé A, Kus K, Correia S, Paulo L, Zacarias S, de Rosa M, et al. Crystal structure of a poxvirus-like zalpha domain from cyprinid herpesvirus 3. J Virol. 2013;87:3998-4004 pubmed publisher
    ..Thus, ORF112 may be considered a new member of the Z-domain family having DNA binding properties similar to those of the poxvirus E3L inhibitor of interferon response...
  76. Garcia Maruniak A, Maruniak J, Farmerie W, Boucias D. Sequence analysis of a non-classified, non-occluded DNA virus that causes salivary gland hypertrophy of Musca domestica, MdSGHV. Virology. 2008;377:184-96 pubmed publisher
    ..Although most of the homology observed was to nudiviruses, phylogenetic analysis showed that MdSGHV was not closely related to them or to the baculoviruses...
  77. Yutin N, Wolf Y, Raoult D, Koonin E. Eukaryotic large nucleo-cytoplasmic DNA viruses: clusters of orthologous genes and reconstruction of viral genome evolution. Virol J. 2009;6:223 pubmed publisher
    The Nucleo-Cytoplasmic Large DNA Viruses (NCLDV) comprise an apparently monophyletic class of viruses that infect a broad variety of eukaryotic hosts...
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    ..The effects of single-nucleotide substitutions are standardized and compared for five RNA or single-stranded DNA viruses infecting bacteria, plants or animals...
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    ..Nevertheless, one of the core functionalities that unify the broad and diverse set of nucleocytoplasmic large DNA viruses (NCLDVs) is the ability to catalyze disulfide formation in the cytosol...
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    Although single stranded (ss) DNA viruses that infect humans and their domesticated animals do not generally cause major diseases, the arthropod borne ssDNA viruses of plants do, and as a result seriously constrain food production in ..
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    ..Here, we summarize the broad application of the RCA technique to DNA viruses infecting humans, animals and plants.