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Fig. 1 | Virology Journal

Fig. 1

From: Nucleotide heterogeneity at the terminal ends of the genomes of two California Citrus tristeza virus strains and their complete genome sequence analysis

Fig. 1

cDNA fragments corresponding to the genome of CTV with the T36-CA or the T30-CA genotype. a The genome organization of CTV. The numbered boxes (1a, 1b and 2 to 11) represent open reading frames (ORFs) and the proteins they encode (as indicated above or below the ORFs). RdRp, RNA-dependent RNA polymerase; CPm, minor coat protein; CP, major coat protein; and proteins named according to their predicted molecular weight, as indicated by the number (s) after the letter “p”. b To obtain the cDNA of the T36-CA genomic (g) RNA, the first strand cDNA (arrow with dotted line) was generated by reverse transcription (RT) using denatured T36-CA dsRNA and a reverse primer, CTV30-AC. The T36-CA 5′ fragment, corresponding to nucleotide (nt) position 1 to 8391, was PCR-amplified using primers CTV34-AC and CTV39-AC. The T36-CA 3′ fragment, corresponding to nt position 7800 to 19,292, was amplified using primers CTV38-AC and CTV35-AC. c The first strand cDNA of T30-CA (arrow with dotted line) was generated by the same method as described for T36-CA, using a reverse primer, CTV30-AC. Primers CTV32-AC and CTV37-AC were used to amplify the T30-CA 5′ fragment corresponding to nt position 1 to 8430, while primers CTV36-AC and CTV33-AC were used to amplify the T30-CA 3′ fragment (nt position 7584 to 19,259). Nucleotide sequences and other details of the primers (represented by solid arrows) used for generating the cDNA fragments are shown in Additional file 1: Table S1

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