Nucleotide sequence of the original Brazilian isolate of coleus yellow viroid from Solenostemon scutellarioides and infectivity of its complementary DNA

A viroid was isolated from symptomless Coleus blumei cultivar (cv.) 'Rainbow Gold' plants using the bidirectional PAGE method for analysis of small circular RNA molecules. The viriod was transmitted to viroid-free plants of Coleus blumei cv. 'Scarlet Dragonfly' by mechanical inoculation. Cloning and sequencing revealed that the viriod from the Coleus cv. 'Rainbow Gold' is closely related to the Coleus blumei viriod 1-BvA (CbVd 1-BvA) isolated from the Coleus cv. 'Bienvenue'. Therefore, new viroid sequence variant has been named Coleus blumei viriod 1-RG (CbVd 1-RG). Coleus blumei viriod 1-RG consists of 251 nucleotides, 140 G + C, 111 A + U with a GC content of 55.4%. The most stable rod-like secondary structure of this viroid has 53 G:C, 29 A:U and 5 G:U base pairs with a minimum free energy (at 25 degrees C) of -81.2 kcal/mol (-339.4 kJ/mol). The right terminal domain shows a high sequence similarity to the corresponding domain of hop latent viroid (HLVd).

A new sequence variant ofColeus blumei viroid 1 from theColeus blumei cultivar ‘Rainbow Gold’

Spieker

1996

A new sequence variant ofColeus blumei viroid 3 from theColeus blumei cultivar ‘Fairway Ruby’

Marinkovic

1996

A viroid was isolated from symptomless Coleus blumei cultivar (cv) 'Fairway Ruby' plants using the bidirectional PAGE method for analysis of small circular RNA molecules. The viroid was transmitted to viroid-free plants of Coleus blumei cv. 'Scarlet Dragonfly' by mechanical inoculation. Cloning and sequencing revealed that the viroid from the Coleus cv. 'Fairway Ruby' is closely related to the Coleus blumei viroid 3-Bv (CbVd 3-Bv) isolated from the Coleus cv. 'Bienvenue'. Therefore, the new viroid sequence variant has been named Coleus blumei viroid 3-FR (CbVd 3-FR). Coleus blumei viroid 3-FR consists of 364 nucleotides, 202 G + C, 162 A + U with a GC content of 55.5%. The most stable rod-like secondary structure of this viroid has 82 G:C, 50 A:U and 10 G:U base pairs with a minimum free energy of -670.5 kJ/mol (-160.4 kcal/mol). Due to mutations that increase the stability of the rod-like secondary structure, CbVd 3-FR has a lower minimum free energy than CbVd 3-Bv (-598.2 kJ/mol; -143.1 kcal/mol). A base-exchange in the upper strand of the central domain of CbVd 3-FR may stabilize the basal helix of hairpin I.

A viroid fromSolanum pseudocapsicum closely related to the tomato apical stunt viroid

Spieker

Marinkovic

Sänger

1996

A viroid was isolated from symptomless Solanum pseudocapsicum cultivar (cv) 'New Patterson' plants using the bidirectional PAGE method for analysis of small circular RNA molecules. The viroid was transmitted to tomato by mechanical inoculation. Infected tomato plants developed symptoms similar to those caused by potato spindle tuber viroid (PSTVd). Cloning and sequencing revealed that the viroid from Solanum pseudocapsicum is closely related to the tomato apical stunt viroid (TASVd). Therefore, the new viroid sequence variant has been named TASVd-S. The circular RNA of TASVd-S consists of 360 nucleotides which can potentially form a rod-like structure with a high degree of base-pairing like all the other known viroids. The nucleotide composition is 99 G, 72 A, 101 C and 88 U, corresponding to 200 G + C, 160 A + U with a GC content of 55.6%. In total 71% of the residues are base-paired and the basepaired residues consist of 73 G:C (57%), 43 A:U (34%) and 11 G:U (9%) base pairs. The most stable rod-like secondary structure of this viroid has 80 G:C, 39 A:U and 11 G:U base pairs with a minimum free energy of -147.5 kcal/mol (-616.6 kJ/mol). The sequence similarity of the left terminal (T1) domain of TASVd-S and the T1 domain of tomato planta macho viroid (TPMVd) is higher than the sequence similarity of these domains of TASVd-S and TASV-d.