Evolution and Diversity of the Human Hepatitis D Virus Genome

Table 1

Alignment of the nucleotide sequences that encode the carboxyl terminal 19-20 residues of LDAg. The sequences are displayed in three different groups (HDV1 as Group I, HDV2 and HDV4 to HDV8 as Group II, and HDV3 as Group III). The amino acid residues that constitute the clathrin box-binding domain and the isoprenylation signal are indicated above the nucleotide sequence in a single-letter amino acid abbreviation. The nucleotide substitution percentage is indicated at right, in which the total nucleotide variations within in-groups are indicated as “All” in the first column. The percentage of nucleotide variation corresponding to the clathrin-box binding domain and the isoprenylation site is shown in the second and third columns, respectively. The accession number of each HDV isolate is indicated at bottom.

Group	Isolates*	Nucleotide substitution percentage (%)
		All	Clathrin Box	Isoprenylation motif
I		3.24 (24/741)	3.60 (7/195)	0.19 (4/156)
II		7.31 (25/342)	0.77 (3/390)	4.5 (12/312)
		5.26 (18/342)
		3.80 (13/342)
		3.51 (6/171)
		0.00 (0/114)
		2.34 (4/171)
III		0.42 (1/180)	0	0

*The accession numbers of the sequences used were AF209859, AF209859; Cagliari, X85253; China, X77627; dFr45, AX741144; dFr47, AX741149; dFr48, AX741164; dFr73, AX741154; dFr644, AX741169; dFr910, AX741159; dFr2005, AM183331; dFr2072, AM183330; dFr2139, AM183332; dFr2158, AM183333; dFr2600, AM183326; dFr2627, AM183329; dFr2703, AM183328; dFr2736, AM183327; Ethiopia, U81989; HDV-Iran, AY633627; Italy, X04451; Japan, X60193; L215, AB088679; Lebanon, M84917; Miyako, AF309420; Miyako-36, AB118845; Miyako-37, AB118846; Nagasaki-2, AB118849; Nauru, M58629; Peru-1, L22063; Somalia, U81988; Taiwan, M92448; Taiwan-3, U19598; Taiwan-Tw-2b, AF018077; Tokyo, AB118847; TW2476, AF104264; TW2667, AF104263; US-1, D01075; US-2, L22066; Vnzd8349, AB037948; Vnzd8375, AB037947; Vnzd8624, AB037949; Yakut-26, AJ309879; and Yakut-62, AJ309880.