title: Identification of internal poly(A) tracts (IPATs) of variable lengths in a novel tobacco rattle virus RNA2 in potatoes.
abstract: The nucleotide (nt) sequences of two closely related isolates (CeWF-2 and CeWGH-2) of a novel tobacco rattle virus (TRV) RNA2 were determined. The sequences of their RNA2-specific regions were almost identical and contained four open reading frames (ORFs) in an arrangement similar to that found in the previously described TRV TpO1 RNA2. Their predicted ORF 1 gene products shared 97 % amino acid sequence identity with the TpO1 coat protein, but the ORF 2 and ORF 3 gene products shared only 82 % sequence identity, and no appreciable sequence similarity was found between the CeWF-2/CeWGH-2 and TpO1 ORF 4 gene products. In the CeWGH-2 sequence, the RNA2-specific and RNA1-related regions were separated by seven adenine (A) residues. In CeWF-2, however, an internal poly(A) tract (IPAT) of variable size consisting of ca. 20 to 30 (A) residues was found. This is the first report of an IPAT occurring in a tobravirus RNA2.
authors.affiliation: c/o Julius Kühn Institute, Federal Research Center for Cultivated Plants, Institute for Epidemiology and Pathogen Diagnostics, Messeweg 11, 38104, Braunschweig, Germany. renate.koenig@julius-kuehn.de.
authors.forename: R
authors.identifier: http://orcid.org/0000-0001-5272-4308
authors.initials: R
authors.lastname: Koenig
authors.affiliation: Julius Kühn Institute, Federal Research Center for Cultivated Plants, Institute for Epidemiology and Pathogen Diagnostics, Messeweg 11, 38104, Braunschweig, Germany.
authors.forename: H
authors.initials: H
authors.lastname: Ziebell
authors.affiliation: Julius Kühn Institute, Federal Research Center for Cultivated Plants, Institute for Plant Protection in Field Crops and Grassland, Messeweg 11, 38104, Braunschweig, Germany.
authors.forename: I
authors.initials: I
authors.lastname: Hilbrich
authors.affiliation: Julius Kühn Institute, Federal Research Center for Cultivated Plants, Institute for Plant Protection in Field Crops and Grassland, Messeweg 11, 38104, Braunschweig, Germany.
authors.forename: K
authors.initials: K
authors.lastname: Lindner
mesh_terms: D021901:DNA, Intergenic; D023061:Gene Order; D016679:Genome, Viral; D016366:Open Reading Frames; D011061:Poly A / Q000235:genetics*; D012328:RNA Viruses / Q000235:genetics* / Q000302:isolation & purification; D012367:RNA, Viral / Q000235:genetics*; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D011198:Solanum tuberosum / Q000821:virology*
chemical_list: D021901:DNA, Intergenic; D012367:RNA, Viral; D011061:Poly A