Copyright
©2009 The WJG Press and Baishideng.
World J Gastroenterol. Aug 28, 2009; 15(32): 4028-4036
Published online Aug 28, 2009. doi: 10.3748/wjg.15.4028
Published online Aug 28, 2009. doi: 10.3748/wjg.15.4028
Table 1 Primers used in this study
Primer | Nucleotide sequence (5’→3’) | Position | Polarity | Reference |
Full S | ||||
Fgp2 | CGCCATGGGAGGTTGGTCTTCCAAACCTCG | 2848-2873 | Forward | This study |
Rgp2 | GACAAGCTTAATGTATACCCAAAGACAAAAGAAAATTGG | 803-835 | Reverse | |
PreS (nested PCR) | ||||
HBPr94 | GGTAAAAAGGGACTCACGATG | 775-795 | Reverse | [2] |
HBPr134 | TGCTGCTATGCCTCATCTTC | 414-433 | Forward | |
HBPr135 | CAAAGACAAAAGAAAAATTGC | 803-822 | Reverse | |
HBx | ||||
Fgp3 | CGCCATGGCTGCTAGGCTGTGCTGCCAAC | 1374-1398 | Forward | This study |
Rgp3 | CGCTCGAGGGCAGAGGGGAAAAAGTTGCATGGT | 1811-1838 | Reverse | |
HBx (nested PCR) | ||||
HB1 | GCCAAGTGTTTGCTGACGC | 1175-1193 | Forward | [37] |
HB2 | CCATACTGCGGAACTCCTAG | 1266-1285 | Forward | |
HB3 | AAAGTTGCATGGTGCTGGTG | 1804-1823 | Reverse |
Table 2 HBV genotype and serotype distribution in samples with different clinical diagnosis
Characteristics | n(%) in each clinical diagnosis | ||||||||||
CH (n = 61) | LC (n = 62) | HCC | Total (n = 171) | P | |||||||
With LC (n = 12) | Without LC (n = 36) | All HCC (n = 48) | CH vs LC | CH vs All HCC | LC vs All HCC | CH vs LC vs All HCC | |||||
Genotype and subgenotype | |||||||||||
B | B2 | 5 (8.2) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 5 (2.9) | NS | NS | NA | 0.007 |
B3 | 38 (62.3) | 41 (66.1) | 8 (66.7) | 20 (55.6) | 28 (58.3) | 107 (62.6) | NS | NS | NS | NS | |
B4 | 0 (0.0) | 1 (1.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (0.6) | NS | NA | NS | NS | |
B5 | 0 (0.0) | 0 (0.0) | 2 (16.7) | 3 (8.3) | 5 (10.4) | 5 (2.9) | NA | 0.034 | 0.032 | 0.002 | |
B7 | 3 (4.9) | 2 (3.2) | 0 (0.0) | 3 (8.3) | 3 (6.3) | 8 (4.7) | NS | NS | NS | NS | |
Total genotype B | 46 (75.4) | 44 (71.0) | 10 (83.3) | 26 (72.2) | 36 (75.0) | 126 (73.7) | NS | NS | NS | NS | |
C | C1 | 12 (19.7) | 13 (21.0) | 2 (16.7) | 10 (27.8) | 12 (25.0) | 37 (21.6) | NS | NS | NS | NS |
C2 | 1 (1.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (0.6) | NS | NS | NA | NS | |
C3 | 2 (3.3) | 5 (8.1) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 7 (4.1) | NS | NS | NS | NS | |
Total genotype C | 15 (24.6) | 18 (29.0) | 2 (16.7) | 10 (27.8) | 12 (25.0) | 45 (26.3) | NS | NS | NS | NS | |
No. HBV genotype B/C (%-B) | 46/15 (75.4) | 44/18 (71.0) | 10/2 (83.3) | 26/10 (72.2) | 36/12 (75.0) | 126/45 (73.7) | NS | NS | NS | NS | |
Genotype and serotype | |||||||||||
B | adw | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (2.8) | 1 (2.1) | 1 (0.6) | NA | NS | NS | NS |
adw2 | 38 (62.3) | 39 (62.9) | 9 (75.0) | 21 (58.3) | 30 (62.5) | 107 (62.6) | NS | NS | NS | NS | |
adw3 | 3 (4.9) | 1 (1.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 4 (2.3) | NS | NS | NS | NS | |
ayw | 0 (0.0) | 1 (1.6) | 0 (0.0) | 1 (2.8) | 1 (2.1) | 2 (1.2) | NS | NS | NS | NS | |
ayw1 | 5 (8.2) | 3 (4.8) | 0 (0.0) | 4 (11.1) | 4 (8.3) | 12 (7.0) | NS | NS | NS | NS | |
C | adrq+ | 14 (23.0) | 17 (27.4) | 2 (16.7) | 9 (25.0) | 11 (22.9) | 42 (24.6) | NS | NS | NS | NS |
adw2 | 0 (0.0) | 1 (1.6) | 0 (0.0) | 1 (2.8) | 1 (2.1) | 2 (1.2) | NS | NS | NS | NS | |
ayr | 1 (1.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (0.6) | NS | NS | NA | NS |
Table 3 Frequencies of some HBx mutations in HBV genotype B according to different clinical diagnosis
Amino acid substitutions | n(%) in each clinical diagnosis | |||||||||
CH (n = 46) | LC (n = 44) | HCC | Total (n = 126) | P | ||||||
With LC (n = 10) | Without LC (n = 26) | All HCC (n = 36) | CH vs LC | CH vs All HCC | LC vs All HCC | CH vs LC vs All HCC | ||||
T118N | 23 (50.0) | 6 (13.6) | 4 (40.0) | 7 (26.9) | 11 (30.6) | 40 (31.7) | < 0.001 | NS | NS | 0.028 |
I127N/T/S | 5 (10.9) | 16 (36.4) | 2 (20.0) | 2 (7.7) | 4 (11.1) | 25 (19.8) | 0.009 | NS | 0.019 | NS |
K130M | 8 (17.4) | 23 (52.3) | 5 (50.0) | 11 (42.3) | 16 (44.4) | 47 (37.3) | 0.001 | 0.015 | NS | 0.006 |
V131I | 8 (17.4) | 22 (50.0) | 4 (40.0) | 11 (42.3) | 15 (41.6) | 45 (35.7) | 0.002 | 0.030 | NS | 0.012 |
Table 4 Prevalence of HBx and core promoter mutations in samples with different clinical diagnosis
Characteristics | n(%) in each clinical diagnosis | |||||||||
CH (n = 61) | LC (n = 62) | HCC | Total (n = 171) | P | ||||||
With LC (n = 12) | Without LC (n = 36) | All HCC (n = 48) | CH vs LC | CH vs All HCC | LC vs All HCC | CH vs LC vs All HCC | ||||
Genotype B/C (%B) | 46/15 (75.4) | 44/18 (71.0) | 10/2 (83.3) | 26/10 (72.2) | 36/12 (75.0) | 126/45 (73.7) | NS | NS | NS | NS |
BCP mutations | ||||||||||
C1726A/T1727(C/T) | 24 (39.3) | 8 (12.9) | 4 (33.3) | 7 (19.4) | 11 (22.9) | 43 (34.1) | 0.002 | NS | 0.015 | 0.003 |
T1753V | 11 (18.0) | 29 (46.8) | 2 (16.7) | 9 (25.0) | 11 (22.9) | 51 (40.5) | 0.015 | NS | 0.018 | 0.004 |
A1762T | 12 (19.7) | 38 (61.3) | 6 (50.0) | 21 (58.3) | 27 (56.3) | 77 (61.1) | < 0.001 | < 0.001 | NS | < 0.001 |
G1764A | 13 (21.3) | 38 (61.3) | 5 (41.7) | 21 (58.3) | 26 (54.2) | 77 (61.1) | < 0.001 | 0.0002 | NS | < 0.001 |
C1766T | 1 (1.6) | 3 (4.8) | 1 (8.3) | 1 (2.8) | 2 (4.2) | 6 (4.8) | NS | NS | NS | NS |
T1768A | 1 (1.6) | 2 (3.2) | 1 (8.3) | 2 (5.6) | 3 (6.3) | 6 (4.8) | NS | NS | NS | NS |
A1762T/G1764A | 12 (19.7) | 37 (59.7) | 5 (41.7) | 21 (58.3) | 26 (54.2) | 75 (59.5) | < 0.001 | 0.0004 | NS | < 0.001 |
Table 5 Single nucleotide polymorphisms in 1726/1727 of HBV Genotype B and C
SNP | n(%) in each HBV genotype and clinical diagnosis | |||||||||||
Genotype B | Genotype C | |||||||||||
CH (n = 46) | LC (n = 44) | HCC | P | CH (n = 15) | LC (n = 18) | HCC | P | |||||
With LC (n = 10) | Without LC (n = 26) | All HCC (n = 36) | With LC (n = 2) | Without LC (n = 10) | All HCC (n = 12) | |||||||
1726A | 24 (52.2) | 9 (20.5) | 4 (40.0) | 8 (30.8) | 11 (33.3) | 0.009 | 13 (86.7) | 13 (72.2) | 2 (100.0) | 7 (70.0) | 9 (75.0) | NS |
1726C | 19 (41.3) | 35 (79.5) | 6 (60.0) | 18 (69.2) | 24 (66.7) | 0.001 | 2 (13.3) | 5 (27.8) | 0 (0.0) | 3 (30.0) | 4 (33.3) | NS |
1726T | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NA |
1727A | 1 (2.2) | 2 (4.5) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS | 8 (53.3) | 11 (61.1) | 2 (100.0) | 2 (20.0) | 4 (33.3) | NS |
1727C | 0 (0.0) | 1 (2.3) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NA |
1727G | 1 (2.2) | 2 (4.5) | 0 (0.0) | 1 (3.8) | 1 (2.8) | NS | 4 (26.7) | 2 (11.1) | 0 (0.0) | 5 (50.0) | 5 (41.7) | NS |
1727T | 44 (95.7) | 39 (88.6) | 10 (100.0) | 25 (96.2) | 35 (97.2) | NS | 3 (20.0) | 5 (27.8) | 0 (0.0) | 3 (30.0) | 3 (25.0) | NS |
1726A/1727A | 1 (2.2) | 1 (2.3) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS | 7 (46.7) | 10 (55.6) | 2 (100.0) | 2 (20.0) | 4 (33.3) | NS |
1726A/1727G | 1 (2.2) | 1 (2.3) | 0 (0.0) | 1 (3.8) | 1 (2.8) | NS | 4 (26.7) | 2 (11.1) | 0 (0.0) | 5 (50.0) | 5 (41.7) | NS |
1726A/1727T | 22 (47.8) | 7 (15.9) | 4 (40.0) | 7 (26.9) | 11 (30.6) | 0.007 | 2 (13.3) | 1 (5.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS |
1726C/1727A | 0 (0.0) | 1 (2.3) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS | 1 (6.7) | 1 (5.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS |
1726C/1727G | 0 (0.0) | 1 (2.3) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NS | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0 (0.0) | NA |
1726C/1727T | 19 (41.3) | 32 (72.7) | 6 (60.0) | 18 (69.2) | 24 (66.7) | 0.006 | 1 (6.7) | 4 (22.2) | 0 (0.0) | 3 (30.0) | 3 (25.0) | NS |
Table 6 Comparison of core promoter mutations in HBV genotype B and C
Characteristics | HBV genotype | P | ||
B | C | All | ||
No. (%) of patients | 126 (73.7) | 45 (26.3) | 171 (100.0) | < 0.001 |
Age (mean ± SD) | 44.3 ± 12.8 | 49.4 ± 13.3 | 45.6 ± 13.1 | 0.024 |
Male/Female (%Male) | 95/31 (75.4) | 32/13 (71.1) | 127/44 (74.3) | NS |
No. (%) of A1762T/G1764A | 42 (33.3) | 33 (73.3) | 75 (43.9) | < 0.001 |
No. (%) of T1753V | 26 (20.6) | 25 (55.6) | 51 (29.8) | < 0.001 |
No. (%) of C1726A/T1727 (C/T) | 40 (31.7) | 3 (6.7) | 43 (25.1) | 0.002 |
- Citation: Utama A, Purwantomo S, Siburian MD, Dhenni R, Gani RA, Hasan I, Sanityoso A, Miskad UA, Akil F, Yusuf I, Achwan WA, Soemohardjo S, Lelosutan SA, Martamala R, Lukito B, Budihusodo U, Lesmana LA, Sulaiman A, Tai S. Hepatitis B virus subgenotypes and basal core promoter mutations in Indonesia. World J Gastroenterol 2009; 15(32): 4028-4036
- URL: https://www.wjgnet.com/1007-9327/full/v15/i32/4028.htm
- DOI: https://dx.doi.org/10.3748/wjg.15.4028