TABLE 2.
Summary of patient and sample details and genotyping results
| Patient and sample detailsa
|
Genotyping results
|
||||||
|---|---|---|---|---|---|---|---|
| Patient age (yr) | Patient sex | Record of diarrhea | Designation | Date of sample (day/mo/yr) | Giardia cysts detected (approx % DAPI staining) | β-Giardin gene locus (compared to published subgenotype B3)b | gdh gene locus (compared to published subgenotype B3)c |
| 24 | F | No record | A | 1/11/04 | + (50) | Isolate group BG-ber2 (1 SNP at position 309) | Isolate group gd-ber3 (2 SNPs at positions 243 and 261) |
| 72 | M | 2 to 3 wk | B | 1/11/04 | ++ (5) | Isolate groups BG-ber3 and BG-ber4 (1 SNP at position 60 and 2 SNPs at positions 60 and 333) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
| 29 | M | No record | C | 28/10/04 | ++ (20) | Identical | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
| M | 29/10/04 | +++ (1) | Identical and isolate group BG-ber5 (2 SNPs at positions 519 and 603) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) | |||
| W | 30/10/04 | ++ (5) | Isolate group BG-ber5 (2 SNPs at positions 519 and 603) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) | |||
| 39 | M | No record | H | 1/11/04 | +++ (2) | Isolate group BG-ber2 (1 SNP at position 309) | Isolate group gd-ber3 (2 SNPs at positions 243 and 261) |
| 20 | F | 2 wk | K | 2/11/04 | ++ (50) | Isolate group BG-ber5 (2 SNPs at positions 519 and 603) | Isolate group gd-ber9 (3 SNPs at positions 111, 411, and 426) |
| 48 | F | 3 wk | P | 28/10/04 | +++ (5) | Isolate groups BG-ber7 and BG-ber8 (2 SNPs at positions 60 and 603 and 3 SNPs at positions 60, 519, and 603) | Isolate group gd-ber7 (3 SNPs at positions 111, 174, and 396) |
| 29 | F | 2 mo | R | 1/11/04 | +/++ (20) | Isolate groups BG-ber1 and BG-ber6 (1 SNP at position 183 and 2 SNPs at positions 183 and 309) | Isolate group gd-ber3 (2 SNPs at positions 243 and 261) |
| 22 | F | 2 to 3 wk | Y | 29/10/04 | ++ (10) | Isolate group BG-ber2 (1 SNP at position 309) | Isolate group gd-ber2 (1 SNP at position 354) |
| 42 | M | No record | CA | 3/11/04 | ++ (2) | Isolate group BG-ber9 (3 SNPs at positions 60, 333, and 633) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
| 29 | F | No record | DA | 2/11/04 | ++ (2) | Isolate group BG-ber9 (3 SNPs at positions 60, 333, and 633) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
| 24 | F | Diarrhea recorded, but no time estimate | FA | 3/11/04 | +++ (too much background fluorescence) | Isolate group BG-ber2 (1 SNP at position 309) | Isolate group gd-ber6 (3 SNPs at positions 111, 174, and 396) |
| 25 | M | 5 wk | GA | 3/11/04 | ++ (30) | Isolate group BG-ber5 (2 SNPs at positions 519 and 603) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
| 23 | F | 7 wk | MA | 3/11/04 | + (50) | Isolate group BG-ber2 (1 SNP at position 309) | Isolate group gd-ber3 (2 SNPs at positions 243 and 261) |
| 46 | F | No record | NA | 1/11/04 | ++ (5) | Isolate group BG-ber10 (4 SNPs at positions 165, 240, 333, and 603) | Isolate group gd-ber1 (1 SNP at position 354) |
| 41 | F | 4 wk | TA | 3/11/04 | ++ (5) | Isolate group BG-ber2 (1 SNP at position 309) | Isolate group gd-ber5 (2 SNPs at positions 111 and 396) |
| 38 | M | 4 to 5 wk | VA | 3/11/04 | ++ (2) | Isolate group BG-ber5 (2 SNPs at positions 519 and 603) | Isolate group gd-ber6 (3 SNPs at positions 111, 174, and 396) |
| 35 | F | 10 days | ØA | 2/11/04 | ++ (5) | Sequence identical to B3 sequence | Isolate group gd-ber8 (3 SNPs at positions 243, 261, and 354)d |
| 40 | F | No record | EB | 2/11/04 | ++ (10) | Isolate group BG-ber5 (2 SNPs at positions 519 and 603) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
| 35 | F | Diarrhea recorded, but no time estimate | GB | 4/11/04 | +++ (too much background fluorescence) | Isolate group BG-ber1 (1 SNP at position 183) | Isolate group gd-ber4 (2 SNPs at positions 111 and 174) |
The mean age was 35 years, and the median age was 35 years (n = 19). The female/male ratio was 13:6. The mean duration of diarrhea was 4 weeks (n = 10). The samples were collected from 28 October 2004 to 4 November 2004.
Genotypes were compared to previously described subgenotype B3 (GenBank accession number AY072727). For further details, including division of the samples by subgenotype group, see Table S4 in the supplemental material. The data showed that four samples were identical to B3, two samples were in group BG-ber1, five samples were in group BG-ber2, one sample was in group BG-ber3, one sample was in group BG-ber4, six samples were in group BG-ber5, one sample was in group BG-ber6, one sample was in group BG-ber7, one sample was in group BG-ber8, two samples were in group BG-ber9, and one sample was in group BG-ber10.
Genotypes were compared to previously described subgenotype B3 (GenBank accession number AY178756). For further details, including division of the samples by subgenotype group, see Table S5 in the supplemental material. The data showed that one sample was in group gd-ber1, one sample was in group gd-ber2, four samples were in group gd-ber3, nine samples were in group gd-ber4, one sample was in group gd-ber5, two samples were in group gd-ber6, one sample was in group gd-ber7, one sample was in group gd-ber8, and one sample was in group gd-ber9.
Sample ØA was more similar to previously described subgenotype B2 (GenBank accession no. AY178753), differing by only two SNPs. For further details see Table S5 in the supplemental material.