A novel badnavirus discovered from Betula sp. affected by birch leaf-roll disease

PloS One
Artemis RumbouCarmen Büttner

Abstract

In declining birches (Betula sp.) from different European stands affected by the "birch leaf-roll disease" (BLRD) a novel virus is identified by means of RNA-Seq virome analysis. The virus represents a new member in the genus Badnavirus, family Caulimoviridae, tentatively named Birch leaf roll-associated virus (BLRaV) and it is the first badnavirus found to infect birch. Complete genome sequences (7,862-7,864 nucleotides) of three viral isolates of Finnish and German origin have been determined. The virus sequences show a typical badnavirus organization with three major open reading frames (ORFs) and a fourth potential ORF overlapping with the end of ORF3. ORFs 1-2-3 show low level of amino acid identity to the corresponding proteins encoded by other badnaviruses, reaching a maximum of 44% identity (ORF3). Grapevine vein-clearing virus appears as the closest badnavirus when considering the polymerase region. So far, we can exclude evidence for presence of endogenous BLRaV elements in the birch genome, while evidence for the episomal activity of BLRaV is provided. The viral population holds significant haplotype diversity, while co-infection by different BLRaV variants are observed in single hosts. BLRaV presence is associated w...Continue Reading

References

Jan 22, 2005·The Journal of General Virology·Andrew D W GeeringJohn E Thomas
Feb 14, 2006·Journal of Virology·Kathrin RebenstorfChristian Obermeier
Sep 5, 2006·Trends in Plant Science·Christina Staginnus, Katja R Richert-Pöggeler
Apr 30, 2010·Journal of Virology·Philippe GayralMarie-Line Iskra-Caruana
Nov 22, 2012·Molecular Ecology·Nian WangRichard J A Buggs
Jun 15, 2013·Molecular Plant Pathology·Basanta K BorahIndranil Dasgupta
Apr 11, 2014·Virus Research·Sebastien MassartThierry Candresse
Mar 21, 2015·Virus Research·Varvara I MaliogkaApostolos D Avgelis
Jun 10, 2015·Phytopathology·Marilyn J RoossinckPhilippe Roumagnac

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Datasets Mentioned

BETA
MG686419

Methods Mentioned

BETA
RNA-Seq
PCR

Software Mentioned

BLASTN
MEGA6
OligoCalc
CLUSTALW
BLASTX
CLC Genomics Workbench
Bioedit

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