A. 481 530 ACMV-N GGCCTGGAGG AACAGGCCCA TGTACAGAAA GCCCATGATG TACAGGATGT ACMV-K GGCCTGGGTG AACAGGCCCA TGTACAGAAA GCCCACGATG TACAGGATGT SLCV TGCATGGGTT AACAGGCCCA TGTACAGGAA GCCCAGGATC TATCGCACAA AbMV TGAATGGGTG CACAGGCCCA TGTACAGGAA GCCCAGGATC TACCGGACGC BGMV TGCATGGGTC AACAGGCCCA TGTATAGAAA GCCAAGGATA TATCGGATGT TGMV TGCTTGGGTT AACAGGCCCA TGTACAGGAA GCCCGAGATA TATCGATCAC F500 5'CCGGGAGCTC ACAGGCCCA TGTAYAGRAA GCC 3' R500 3' TGTCCGGGT ACATRTCYTT CGG AGATCTAACG 5' B. 1781 1830 ACMV-N GAAGATAGTG GGAATGCCAC CTTTAATTTG AACGGGTTTC CCGTATTTCG ACMV-K GAAGATAGTG GGAATTCCAC CTTTAATTTG AACGGGTTTC CCGTATTTCG SLCV CACGATTGAT GGGATTCCAC CTTTAATTTG AACCGGCTTT CCATATTTAC AbMV CACGATTGCT CGGATTCCTC CTTTAATTTG AACCGGCTTG GCTAACTTGC BGMV CACGATTGAT GGTATTCCTC CTTTAATTTG AACCGGCTTT CCATATTTAC TGMV CACGATTGAC GGGATACCTC CTTTAATTTG AACTGGCTTT CCGTATTTAC F1800 5' CCGGGAGCTC CCWC CTTTAATTTG AACBGG 3' R1800 3' GGWG GAAATTAAAC TTGVCC AGATCTAACG 5'
Figure 3. Alignment of the DNA A sequences of six bipartite, whitefly transmitted subgroup III geminiviruses using the Pileup program in the GCG Software Package. Highly conserved regions in the capsid protein gene (A) and in the AC1 gene (B) were identified. Conserved sequences are shown in bold. Forward primers (F500 and F1800) and reverse primers (R500 and R1800) were designed according to sequences at each conserved region. Restriction sites XbaI (TCTAGA) or SstI (GAGCTC) were added to the 5' termini of the primers, as denoted in italics. Four additional random nucleotides were added to 5' of the restriction sites in each primer. Degenerate nucleotides are denoted as: Y=C, T; R=G, A; W=T, A; B=C, G, T; V=A, C, G.
ACMV-K, ACMV-N = Kenyan strain (Stanley and Gay, 1983, [J02057]) and Nigerian strain (Morris et al., 1990, [X17095]) of African cassava mosaic virus.
AbMV = Abutilon mosaic virus (Frischmuth et al., 1990, [X15983]).
BGMV = bean golden mosaic virus (Howarth et al., 1985, [M10070]).
SLCV = squash leaf curl virus (Lazarowitz and Lazdins, 1991, [M38183]).
TGMV = tomato golden mosaic virus (Hamilton et al., 1984, [K02029]).