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Fig. 3 | Virology Journal

Fig. 3

From: The proposed new species, cacao red vein virus, and three previously recognized badnavirus species are associated with cacao swollen shoot disease

Fig. 3

Phylogenetic analysis using Maximum likelihood (ML), implemented in MEGA 6 [45], for 87 badnaviral genomes (a) RT-RNase H region (1230 bp; ~coordinates 5196–6425) and (b) complete genome sequences. Horizontal branch lengths are proportional to genetic distance, and the values placed at major nodes indicate ≥70% bootstrap support (1000 iterations). Each genome sequence is indicated by the code for the country from which the sample was collected, and sample number. CSSD-badnavirus reference sequences are indicated by Genbank Accession number, and country code. The blue, black and green letters for the CSSD subclade isolates indicate number of coding regions per genome as: four, five and six open reading frames, respectively. Country codes and names are: CI = Cote d’Ivoire, GH = Ghana, and TG = Togo. The names of viruses are abbreviated as: PYMaV-Pagoda yellow mosaic associated virus; TBV-Taro bacilliform virus; SPBVA-Sweetpotato badnavirus A; SPBVB-Sweetpotato badnavirus B; MBV1-Mulberry badnavirus 1; DMV-Dracaena mottle virus; CoYMV-Commelina yellow mottle virus; BsCVBV-Bougainvillea spectabilis chlorotic vein-banding virus; SCBIMV-Sugarcane bacilliform IM virus; SCBMorV-Sugarcane bacilliform Mor virus; BSUMV-Banana streak UM virus; BSUIV-Banana streak UI virus; BSULV-Banana streak UL virus; CSSV-Cacao swollen shoot virus; CSSTAV-Cacao swollen shoot Togo A virus; CSSCDV-Cacao swollen shoot CD virus; CRVV-Cacao red vein virus; PYMoV-Piper yellow mottle virus; GVBV-Gooseberry vein banding virus; RYNV-Rubus yellow net virus; HBV-Hibiscus bacilliform virus; FBV1-Fig badnavirus 1; CiYMV-Citrus yellow mosaic virus; PVBV-Pelargonium vein banding virus; BVF-Blackberry virus F; PBCoV-Pineapple bacilliform comosus virus; GVCV-Grapevine vein clearing virus; BSGFV-Banana streak GF virus; BSMYV-Banana streak MY virus; DBV-Dioscorea bacilliform virus; SCBV-Sugarcane bacilliform virus; KTSV-Kalanchoe top spotting virus; BSUAV-Banana streak UA virus; BSOLV-Banana streak OL virus; BSCAV-Banana streak CA virus; BSIMV-Banana streak IM virus; BSVAcV-Banana streak Vietnam Acuminata virus, CaMMV-Cacao mild mosaic virus; and CYVBV-Cacao yellow vein-banding virus

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