nach oben

Archives of Virology

Erschienen in:

22.11.2016 | Brief Report

Comparative analysis of common regions found in babuviruses and alphasatellite molecules

verfasst von: Daisy Stainton, Darren P. Martin, David A. Collings, Arvind Varsani

Erschienen in: Archives of Virology | Ausgabe 3/2017

Einloggen, um Zugang zu erhalten

Abstract

Viruses in the genus Babuvirus have multi-component ssDNA genomes and often associate with alphasatellite molecules containing two common motifs, a common-region stem-loop (CR-SL) involved in initiation of rolling-circle replication and a common-region major (CR-M) motif involved in secondary-strand synthesis. We compared known babuvirus genome components and alphasatellite CR-SL and CR-M sequences, defining five divergent CR-SL sequence classes. We identified iterated sequence elements in babuvirus genome components that have particularly conserved sequences and spatial arrangements between known babuviruses.

Nur mit Berechtigung zugänglich

Briddon RW, Bull SE, Amin I, Idris AM, Mansoor S, Bedford ID, Dhawan P, Rishi N, Siwatch SS, Abdel-Salam AM, Brown JK, Zafar Y, Markham PG (2003) Diversity of DNA β, a satellite molecule associated with some monopartite begomoviruses. Virology 312:106–121CrossRefPubMed

Briddon RW, Stanley J (2006) Subviral agents associated with plant single-stranded DNA viruses. Virology 344:198–210CrossRefPubMed

Burns TM, Harding RM, Dale JL (1995) The genome organisation of banana bunchy top virus: analysis of six ssDNA components. J Gen Virol 76:1471–1482CrossRefPubMed

Crooks GE, Hon G, Chandonia JM, Brenner SE (2004) WebLogo: a sequence logo generator. Genome Res 14:1188–1190CrossRefPubMedPubMedCentral

Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792–1797CrossRefPubMedPubMedCentral

Fenoll C, Schwarz JJ, Black DM, Schneider M, Howell SH (1990) The Intergenic Region of Maize Streak Virus contains a Gc-Rich element that activates rightward transcription and Binds Maize nuclear factors. Plant Mol Biol 15:865–877CrossRefPubMed

Hafner GJ, Harding RM, Dale JL (1997) A DNA primer associated with banana bunchy top virus. J Gen Virol 78:479–486CrossRefPubMed

Hafner GJ, Stafford MR, Wolter LC, Harding RM, Dale JL (1997) Nicking and joining activity of banana bunchy top virus replication protein in vitro. J Gen Virol 78:1795–1799CrossRefPubMed

Herrera-Valencia VA, Dugdale B, Harding RM, Dale JL (2006) An iterated sequence in the genome of Banana bunchy top virus is essential for efficient replication. J Gen Virol 87:3409–3412CrossRefPubMed

10.

Honda Y, Sakai H, Hiasa H, Tanaka K, Komano T, Bagdasarian M (1991) Functional division and reconstruction of a plasmid replication origin: molecular dissection of the oriV of the broad-host-range plasmid RSF1010. Proc Natl Acad Sci USA 88:179–183CrossRefPubMedPubMedCentral

11.

Horser CL, Harding RM, Dale JL (2001) Banana bunchy top nanovirus DNA-1 encodes the ‘master’ replication initiation protein. J Gen Virol 82:459–464CrossRefPubMed

12.

Horser CL, Karan M, Harding RM, Dale JL (2001) Additional rep-encoding DNAs associated with banana bunchy top virus. Arch Virol 146:71–86CrossRefPubMed

13.

Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772–780CrossRefPubMedPubMedCentral

14.

Katul L, Timchenko T, Gronenborn B, Vetten HJ (1998) Ten distinct circular ssDNA components, four of which encode putative replication-associated proteins, are associated with the faba bean necrotic yellows virus genome. J Gen Virol 79:3101–3109CrossRefPubMed

15.

Mandal B, Shilpi S, Barman AR, Mandal S, Varma A (2013) Nine novel DNA components associated with the foorkey disease of large cardamom: evidence of a distinct babuvirus species in Nanoviridae. Virus Res 178:297–305CrossRefPubMed

16.

Muhire BM, Golden M, Murrell B, Lefeuvre P, Lett JM, Gray A, Poon AY, Ngandu NK, Semegni Y, Tanov EP, Monjane AL, Harkins GW, Varsani A, Shepherd DN, Martin DP (2014) Evidence of pervasive biologically functional secondary structures within the genomes of eukaryotic single-stranded DNA viruses. J Virol 88:1972–1989CrossRefPubMedPubMedCentral

17.

Muhire BM, Varsani A, Martin DP (2014) SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS One 9:e108277CrossRefPubMedPubMedCentral

18.

Saunders K, Stanley J (1999) A nanovirus-like DNA component associated with yellow vein disease of Ageratum conyzoides: Evidence for interfamilial recombination between plant DNA viruses. Virology 264:142–152CrossRefPubMed

19.

Saunders K, Bedford ID, Stanley J (2002) Adaptation from whitefly to leafhopper transmission of an autonomously replicating nanovirus-like DNA component associated with ageratum yellow vein disease. J Gen Virol 83:907–913CrossRefPubMed

20.

Savory FR, Ramakrishnan U (2014) Asymmetric patterns of reassortment and concerted evolution in Cardamom bushy dwarf virus. Infect Genet Evol 24:15–24CrossRefPubMed

21.

Stainton D, Martin DP, Muhire BM, Lolohea S, Halafihi M, Lepoint P, Blomme G, Crew KS, Sharman M, Kraberger S, Dayaram A, Walters M, Collings DA, Lemey P, Harkins GW, Batsirai M, Thomas JE, Varsani A (2015) The global distribution of Banana bunchy top virus reveals little evidence for frequent recent, human-mediated long distance dispersal events. Virus Evol 1:vev009

22.

Timchenko T, Katul L, Sano Y, de Kouchkovsky F, Vetten HJ, Gronenborn B (2000) The master rep concept in nanovirus replication: identification of missing genome components and potential for natural genetic reassortment. Virology 274:189–195CrossRefPubMed

23.

Vetten HJ, Dale JL, Grigoras I, Gronenborn B, Harding R, Randles JW, Sano Y, Thomas JE, Timchenko T, Yeh HH (2012) Nanoviridae. In: King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (eds) Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruse. Elsevier, Academic Press, Amsterdam, pp 395–404

24.

Wang HI, Chang CH, Lin PH, Fu HC, Tang C, Yeh HH (2013) Application of motif-based tools on evolutionary analysis of multipartite single-stranded DNA viruses. PLoS One 8:e71565CrossRefPubMedPubMedCentral

25.

Zhou X (2013) Advances in understanding begomovirus satellites. Ann Rev Phytopathol 51:357–381CrossRef

Titel: Comparative analysis of common regions found in babuviruses and alphasatellite molecules
verfasst von: Daisy Stainton
Darren P. Martin
David A. Collings
Arvind Varsani
Publikationsdatum: 22.11.2016
Verlag: Springer Vienna
Erschienen in: Archives of Virology / Ausgabe 3/2017
Print ISSN: 0304-8608
Elektronische ISSN: 1432-8798
DOI: https://doi.org/10.1007/s00705-016-3168-1

Leitlinien kompakt für die Innere Medizin

Mit medbee Pocketcards sicher entscheiden.

^{Seit 2022 gehört die medbee GmbH zum Springer Medizin Verlag}

Kostenlos registrieren

Neu im Fachgebiet Innere Medizin

19.04.2024 | Vorhofflimmern | Nachrichten

Update Innere Medizin

Bestellen Sie unseren Fach-Newsletter und bleiben Sie gut informiert.

Newsletter bestellen

Live-Webinar: Aktuelle Leitlinien bei Herz-Kreislauf-Erkrankungen

Springer Medizin

Comparative analysis of common regions found in babuviruses and alphasatellite molecules

Abstract

Leitlinien kompakt für die Innere Medizin

Neu im Fachgebiet Innere Medizin

Parodontalbehandlung verbessert Prognose bei Katheterablation

Antihypertensiva schützen auch alte Menschen noch vor Demenz

Stereotaktische Radiatio schlägt konventionelle Bestrahlung

Denken Sie bei starker Blutung auch an die Hemmkörper-Hämophilie

Update Innere Medizin

Live-Webinar: Aktuelle Leitlinien bei Herz-Kreislauf-Erkrankungen

Springer Medizin

Abstract

Bitte loggen Sie sich ein, um Zugang zu diesem Inhalt zu erhalten

Weitere Artikel der Ausgabe 3/2017

Efficient production of recombinant glycoprotein D of herpes simplex virus type 2 in Pichia pastoris and its protective efficacy against viral challenge in mice

Effects of deletion of the ac109 gene of Autographa californica nucleopolyhedrovirus on interactions with mammalian cells

Identification and genetic characterization of classical swine fever virus isolates in Brazil: a new subgenotype

The effect of phylogenetic signal reduction on genotyping of hepatitis E viruses of the species Orthohepevirus A

Erratum to: Complete nucleotide sequences of seven soybean mosaic viruses (SMV), isolated from wild soybeans (Glycine soja) in China

Preliminary characterization of Tasmanian aquareovirus (TSRV) isolates

Leitlinien kompakt für die Innere Medizin

Neu im Fachgebiet Innere Medizin

Parodontalbehandlung verbessert Prognose bei Katheterablation

Antihypertensiva schützen auch alte Menschen noch vor Demenz

Stereotaktische Radiatio schlägt konventionelle Bestrahlung

Denken Sie bei starker Blutung auch an die Hemmkörper-Hämophilie

Update Innere Medizin