ANNOTATED SEQUENCE RECORD
Nucleotide sequence and genome organization of atractylodes
mottle virus, a new member of the genus Carlavirus
Ran Hee Yoo
Jae Sun Moon
Received: 26 May 2015 / Accepted: 21 July 2015 / Published online: 12 August 2015
Ó Springer-Verlag Wien 2015
Abstract The complete genome sequence of a member
of a distinct species of the genus Carlavirus in the family
Betaﬂexiviridae, tentatively named atractylodes mottle
virus (AtrMoV), has been determined. Analysis of its
genomic organization indicates that it has a single-stran-
ded, positive-sense genomic RNA of 8866 nucleotides,
excluding the poly(A) tail, and consists of six open reading
frames typical of members of the genus Carlavirus. The
individual open reading frames of AtrMoV show moder-
ately low sequence similarity to those of other carlaviruses
at the nucleotide and amino acid sequence levels. Pairwise
comparison and phylogenetic analysis suggest that Atr-
MoV is most closely related to chrysanthemum virus B.
Atractylodes macrocephala Koidz (A. macrocephala, also
known as Bai Zhu), belonging to the family Compositae,is
a medicinal herb that is widespread in some East Asian
countries, especially China, South Korea and Japan. A.
macrocephala rhizome extracts have been reported to
possess anti-inﬂammatory, anti-obesity, anti-oxidant, and
anti-allergic properties [2–5]. As a result, cultivation of A.
macrocephala has expanded to meet a growing demand.
However, a number of diseases affecting A. macrocephala,
such as leaf spot, root rot, and southern blight caused by
fungal pathogens, have been reported to result in poor-
quality rhizome extracts and reduced yield . In a recent
study, cucumber mosaic virus was isolated from dwarf A.
macrocephala plants in China . In this paper, we have
identiﬁed another viral pathogen designated atractylodes
mottle virus (AtrMoV) causing mottling symptoms in A.
Provenance of virus material
In this work, an RNA-sequencing (RNA-seq) technique
was applied to identify novel viral agents. Atractylodes
macrocephala plants showing silver mottle on the leaves
were collected from Eumseong in South Korea and ground
for total RNA extraction using TRI Reagent (MRC,
Cincinnati, OH, USA). A Ribo-Zero rRNA Removal Kit
(Plant Leaf) (Epicentre, Madison, WI, USA) was used to
deplete the ribosomal RNA from transcriptomes according
to the manufacturer’s instructions. Subsequently, the
mRNA-enriched RNAs were used for library construction
with a TruSeq RNA Sample Prep Kit (Illumina, San Diego,
CA, USA) following the protocols provided by the
F. Zhao and D. Igori contributed equally to this study.
Electronic supplementary material The online version of this
article (doi:10.1007/s00705-015-2553-5) contains supplementary
material, which is available to authorized users.
& Su-Heon Lee
& Jae Sun Moon
Biosystems and Bioengineering Program, University of
Science and Technology (UST), Daejeon 305-350,
Plant Systems Engineering Research Center, Korea Research
Institute of Bioscience and Biotechnology, Daejeon 305-806,
School of Applied Biosciences, Kyungpook National
University, Daegu 702-701, South Korea
Arch Virol (2015) 160:2895–2898