Complete nucleotide sequence of a new satellite RNA associated with cucumber mosaic virus inducing tomato necrosis

Ninghui Cheng, Rongxiang Fang, Zuqin Pu and Zhongda Fang

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Abstract

A new strain (TN strain) of cucumber mosaic virus (CMV) was isolated from tomato plants with necrotic symptoms and proved to carry a necrogenic satellite RNA (TN-Sat RNA). Double-strand cDNA of the TN-Sat RNA was synthesized by reverse transcription and polymerase chain reaction using primers designed according to the conserved terminal sequences of known CMV satellite RNAs. Sequence analysis indicated that the TN-Sat RNA consisted of 390 nucleotides (nt). Comparison of the sequence of the TN-Sat RNA with those of other CMV satellite RNAs revealed four homobgous regions (I. 1–81 nt; II. 216–261 nt; III. 278–338 nt; IV. 349–390 nt) and one hypervarible domain in the region of 82–215 nt. Moreover, the TN-Sat RNA contained a characteristic necrogenic consensus sequence at the 3′ end (339–367 nt) as reported in the known necrosis-inducing CMV satellite RNAs.

Keywords  cucumber mosaic virus - satellite RNA - tomato necrosis - nucleotide sequence

The nucleotide sequence of the TN-Sat RNA of CMV has been deposited with the DDBJ/EMBL/GenBank databases under the accession number D84389.

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