Table 3.

JCV VP1 Amino Acid Substitutions in Sequences Derived From Cerebrospinal Fluid (CSF) of PML Patients

	Patient IDa	Underlying disease	CSF JCV DNA log c/mL	JCV VP1 subtypeb	PML-associated substitution	No. of clones with substitution/no. of clones analyzed
1	5088	HIV	3.71	4v-164K	none	0/3
2	5168	HIV	3.39	1B	none	PCRc
3	5211	HIV	4.43	2B	none	PCR
4	5162 (0)	HIV	4.12	2B	50-51del; D66G; N124S	22/22; 3/22; 2/22
	5162 (230)		4.49	2B	50-51 del	44/44
	5162 (719-r)		3.68	2B	50-51del;124-133 del	PCR
5	5005 (0)	HIV	3.49	1B	L55F	9/9
	5005 (17)		4.87	1B	L55F	23/23
	5005 (92)		3.47	1B	L55F	48/48
6	5013	HIV	6.55	1A	L55F	21/21
7	5031	HIV	6.12	3	L55F; Q271H	18/22; 4/22d
8	5087	HIV	4.39	1B	L55F	19/19
9	5092	HIV	5.6	1A	L55F	20/20
10	5108	HIV	5.87	4-v128A,345K	L55F	24/24
11	5135	HIV	3.94	1A-v75K,308R	L55F	PCR
12	5177	HIV	6.51	1A	L55F	PCR
13	5053	HIV	4.05	2B	L55F	PCR
14	5175	HIV	4.26	2B-v264I,308R	K60M	PCR
15	5169 (0)	HIV	5.41	1B	S61L; 54-55 del	15/22; 4/22d
	5169 (26)		4.30	1B	S61L	PCR
16	5067	HIV	4.18	1A	H122R	27/27
17	5152 (0)	HIV	3.61	1A	H122R; A2V	44/46; 45/46
	5152 (487)		3.80	1A	H122R; A2V	35/36; 35/36
18	5026	HIV	3.14	1B	123-125 del	8/8
19	5009 (0)	HIV	2.75	4-v128A	N265D	41/41
	5009 (225-r)		2.75	4-v128A	N265D	PCR
20	5016 (0)	HIV	6.24	4-v128A	N265D	23/23
	5016 (56)		8.59	4-v128A	N265D	48/48
21	5050	HIV	5.03	4	Q271R	PCR
22	5007	HIV	6.89	1B	S267F; S61L; Q271H	15/22; 4/22; 2/22d
23	5033	HIV	4.1	2B	S267F	42/42
24	5029	HIV	6.78	2B-v74T,345K	S269F	21/22
25	5174	HIV	7.62	1B	S269F	28/28
26	5147	HIV	3.95	2B	S269F	PCR
27	5040 (0)	HIV	5.93	1A-v75K,128S	S269F	PCR
	5040 (3128-r)		4.28	1A-v75K,128S	None	0/14
28	5180	HIV	4.96	1A	S269F	PCR
29	5058	HIV	4.53	1A-v75K	S269F	PCR
30	5202	HIV	6.6	Undet.e	S269Y	PCR
31	5064 (0)	SLE	4.31	2B	L55F	47/47
	5064 (66)		2.98	2B	L55F	23/23
32	5201	NHL	7	1B	K60N	PCR
33	5041	NHL	5.54	2B	N265H	20/20
34	5167	ICL	3.63	2B-v69D, 128A	S267Y	PCR
35	5060	NHL	6.24	2B	S269F	23/23
36	5121	NHL	3.62	1B-v117T	S269F	41/41
37	5138	NHL	4.01	1B	S269F	19/19
38	5166	NHL	4.78	1A	S269F	14/14
39	5207	NHL, SCT	6.39	1B	Q271H	PCR
40	5097	Hyper IgE syndrome	5.69	1B	V283I	PCR

NOTE. JCV indicates JC virus; VP1, viral protein 1; PML, progressive multifocal leukoencephalopathy; HIV, human immunodeficiency virus; PCR, polymerase chain reaction; Undet., undetermined; SLE, systemic lupus erythematosus; NHL, non-Hodgkin lymphoma; ICL, Idiopathic CD4 lymphopenia; SCT, stem cell transplantation.

^aNumber in parentheses indicate the number of days from first sample examined.

^bAccording to [8]. The subgroup followed by “v” and position indicates subgroup variant and polymorphism relative to that subtype.

^cPCR, sequence information was obtained directly from a PCR product without cloning.

^dDifferent mutations were observed in different clones.

^eSequence available up to position 295.