A new virus related to Satsuma dwarf virus: the nucleotide sequence of the 3?-terminal regions of Hyuganatsu virus RNAs 1 and 2

Abstract

The sequences of the 3'-terminal 1306 and 2160 nucleotides of RNAs 1 and 2 of a virus serologically related to Satsuma dwarf virus (SDV) from Hyuganatsu ( Citrus tamurana Hort. ex Tan.) were determined, respectively. We found that the partial RNA-dependent RNA polymerase region in RNA1 and the coat proteins (CPs) region in RNA2 of the virus tentatively named Hyuganatsu virus (HV) have 78.3-84.0% and 76.9-80.7% amino acid sequence identities to those of known SDV-related viruses (SDV-RVs), i.e., SDV, Citrus mosaic virus, and Navel orange infectious mottling virus. Sequence analyses show that HV is classifiable as a new SDV-RV species.

Genetic diversity and a heterogeneous population of Citrus mosaic virus within a single citrus tree

“…1). Following the sequence, the 3′-NCR of RNA1 and RNA2 of all the 97032 variants was highly conserved: that is, 89.1%-98.8% identities, as well as some SDV strains reported previously (Ito et al 2004;Iwanami et al 1998).…”

“…The distantly related strains of SDV, Citrus mosaic virus (CiMV), Navel orange infectious mottling virus (NIMV), and Hyuganatsu virus (HV) have been described on the basis of their symptoms in citrus and herbaceous indexing plants, serological relationships, and nucleotide sequence analyses (Ito et al 2004;Iwanami and Koizumi 2000;Iwanami et al 2001;Le Gall et al 2005). Characteristically, CiMV isolate Ci-968 causes mosaic on citrus fruit rind (Iwanami et al 1993;Iwanami and Ieki 1996a, b;Iwanami and Koizumi 2000); however, infection by the other CiMV isolates does not produce this symptom .…”

“…These primers amplify a fragment of approximately 1200 nt from the RdRp and 3′-noncoding region (3′-NCR) of the RNA1 of all known SDV strains (Ito et al 2004;Iwanami and Ieki 1996a;Iwanami et al 1999;Karasev et al 2001). The second primer pair consisted of SDV-CM (5′-CAGAAATCAAGAAAAACAC-3′) and SDV-CP (5′-GGGAAAGCTGCTTATTTAGG-3′), complementary to 5294-5312 and homologous to 3786-3805, respectively, of the S-58 RNA2 nucleotide sequence (Iwanami et al 1999).…”

“…RT-PCR was carried out as previously described (Ito et al 2004). The amplifi ed fragments were cloned using an Original TA cloning kit (Invitrogen, Carlsbad, CA, USA), and sequenced in both directions using dideoxynucleotide chain termination with a Texas Red M13 Forward or Reverse primer (Amersham Biosciences, Piscataway, NJ, USA) and a Thermo Sequenase pre-mixed cycle-sequencing kit (Amersham Biosciences).…”

First report of Citrus psorosis virus in Japan

“…Most of the samples were described previously (Ito et al 2003). The PCR amplification was then carried out using the method of either Ito et al (2004) or Nakaune and Nakano (2006). Consequently, the RT-PCR detected bands with ca.…”