The genomic sequence of cardamine chlorotic fleck carmovirus

The complete sequence of the single-stranded, (M )-sense RNA genome of saguaro cactus carmovirus (SCV) has been determined. The 3879 nucleotide genome contains five open reading frames (ORFs). The 5h-proximal ORF encodes a 26 kDa protein (p26) and terminates with an amber codon which is readthrough into an in-frame p57 ORF to generate an 86 kDa fusion protein (p86). Two small, centrally located ORFs encode a 6 kDa protein (p6) and a 9 kDa protein (p9), respectively. The 3h-proximal ORF encodes a 37 kDa (p37) capsid protein (CP). Analysis of the nucleotide and predicted amino acid sequences supports the classification of SCV in the genus Carmovirus in the family Tombusviridae. All predicted SCV proteins are expressed in an in vitro

Section: Comparison Of Genome Organization In Carmovirusessupporting

confidence: 69%

Section: Introductionmentioning

confidence: 99%

Genome organization and gene expression of saguaro cactus carmovirus.

Weng

Zhou

1997

“…The sequences used in the comparisons were from tobacco necrosis virus D (TNV-D) (Coutts et at., 1991), tobacco necrosis virus A (TNV-A) (Meulewaeter et al, 1990), tomato bushy stunt virus (TBSV) (Hearne et al, 1990), cucumber necrosis virus (CuNV) (Rochon & Tremaine, 1989), artichoke mottled crinkle virus (AMCV) (Tavazza et al, 1994), carnation mottle virus (CarMV) (Guilley et al, 1985), cardamine chlorotic fleck virus (CCFV) (Skotnicki et al, 1993), turnip crinkle virus (TCV) (Carrington et al, 1989), southern bean mosaic virus (bean strain) (SBMV) (Othman & Hull, 1995), cymbidium ringspot virus (CyRSV) (Grieco et al, 1989), melon necrotic spot virus (MNSV) (Riviere & Rochon, 1990), maize chlorotic mottle virus (MCMV) (Nutter et al, 1989) and red clover necrotic mosaic virus (RCNMV) (Xiong & Lommel, 1989).…”

Section: Methodsmentioning

confidence: 99%

The nucleotide sequence and proposed genome organization of oat chlorotic stunt virus, a new soil-borne virus of cereals

Boonham

1995

The complete genomic sequence of a new virus, first found infecting oats in Wales, UK, has been determined. The genome is a positive-sense ssRNA molecule, 4114 nucleotides in length, examination of which indicates the presence of four ORFs. The first ORF initiating at the 5' terminus (ORF1) encodes a protein with a predicted M r of 23 476 (p23). ORF2 extends through the amber termination codon of ORF1 to give a protein with a predicted M r of 84 355 (p84). The readthrough domain of p84 contains amino acid sequence similarities with a number of putative RNA-dependent RNA polymerases. ORF3 is in a different reading frame from ORF1/2 and encodes a protein with an M r of 48 231 (p48), identified as the coat protein by direct peptide sequencing. ORF4 nests within ORF3 but is in a different frame from it and codes for a protein with a predicted M r of 8220 (p8). Comparisons of peptide sequence, particularly within the putative polymerase region and within the S domain of the coat protein, highlight similarities with members of both the tombusvirus and carmovirus groups. The coat protein region shows most similarity with members of the tombusvirus group, whilst the size and predicted strategy of the genome seem to be intermediate between that of the carmovirus and tombusvirus groups. These features highlight possible evolutionary links with each group whilst being distinct from both. We propose the name of oat chlorotic stunt for this new virus.

“…In this context we note that whereas the readthrough product of CarMV produced a strong band in translation studies , similar experiments with turnip crinkle virus (TCV) (Dougherty & Kaesberg, 1981) and BMMV (Hari et al, 1988) produced very weak bands relative to the other translation products. Others merely postulated the presence of a readthrough product on the basis of similar genomic organization for cardamine chlorotic fleck virus (CCFV) (Skotnicki et al, 1993) and melon necrotic spot virus (MNSV) (Riviere & Rochon, 1990). While there is strong evidence that the ORF1/ORF2 readthrough protein is a characteristic of carmoviruses, it has yet to be demonstrated in three of the six carmoviruses studied (including CPMoV).…”

mentioning

confidence: 99%

The nucleotide sequence of cowpea mottle virus and its assignment to the genus Carmovirus

You

Kim

Stuart

et al. 1995

The genome of cowpea motile virus (CPMoV) is a positive ssRNA of 4029 nucleotides with six major open reading frames (ORFs). A non-coding region of 34 nucleotides precedes the first AUG. ORF1 encodes a 25 kDa polypeptide of unknown function and ORF2 encodes a 56 kDa putative RNA replicase. Like other members of carmoviruses, suppression of the amber termination codon of ORF1 would produce a readthrough polypeptide of 83 kDa. ORF3 and ORF4 encode two small proteins of 7"8 and 9"8 kDa, respectively. ORF5 encodes the 40 kDa capsid protein.ORF6 is located within ORF5 but is in a different frame and has no postulated function. CPMoV RNA is blocked at the 5' end and is not polyadenylated at the 3' end.