Arch Virol (2005) 150: 1187–1201
Two unique US isolates of Pepino mosaic virus
from a limited source of pooled tomato tissue
are distinct from a third (European-like) US isolate
C. J. Maroon-Lango
, M. A. Guaragna
, R. L. Jordan
, J. Hammond
, and S. K. Marquardt
Floral and Nursery Plants Research Unit, US National Arboretum,
USDA-ARS, Beltsville, Maryland, U.S.A.
Agdia, Inc., Elkhart, Indiana, U.S.A.
Received May 3, 2004; accepted January 12, 2005
Published online March 8, 2005
Summary. Three strains of Pepino mosaic virus (PepMV) found in the US have
been cloned and sequenced by RT-PCR using total RNA from infected tissue
as template, and degenerate potexvirus- and PepMV species- and isolate-speciﬁc
primers. Despite limited source material, the complete nucleotide sequences (6413
and 6410 nts, respectively) of two isolates, PepMV-US1 and PepMV-US2, were
obtained and analyzed using total RNA from less than 0.2 g of a pooled infected
tomato leaf sample from Arizona. Sequence of the 3
-end of the third isolate from
infected fresh tomato fruits from Maryland (PepMV-US3) was also determined.
The genome organizations of PepMV-US1 and US2 were typical of the genus
Potexvirus, with the following reading frame order: ORF 1, encoding a putative
replicase; ORFs 2–4, triple gene block proteins (TGBp) 1–3; and ORF 5, coat
protein (CP). Gene-for-gene comparison between PepMV-US1 and US2 revealed
the following amino acid identities: 91% in replicase, 89% in TGBp1, 92% in
TGBp2, 85% in TGBp3, and 93% in the CP; with an overall nucleotide identity of
86%. Nucleotide sequence comparisons between US1 and US2 and the European
Note: Nucleotide sequence data reported are available in the GenBank database under the
accession numbers AY509926, AY509927, and AY508411.
The use of trade, ﬁrm, or corporation names in this article does not imply the endorsement
or approval by the USDA, ARS of any product to the exclusion of others that may be suitable.