Molecular virology of hepatitis B virus, sub-genotype C4 in northern Australian Indigenous populations

Journal of Medical Virology

Volumn 86, Issue 4, 2014, Pages 695-706

  Littlejohn, M ^a   Davies, J ^c,d   Yuen, L ^a   Edwards, R ^a   Sozzi, T ^a   Jackson, K ^a   Cowie, B ^a,b   Tong, S ^c,d   Davis, J ^c,d   Locarnini, S ^a  

^a VICTORIAN INFECTIOUS DISEASES REFERENCE LABORATORY   (Australia)

^b ROYAL MELBOURNE HOSPITAL   (Australia)

^c MENZIES SCHOOL OF HEALTH RESEARCH   (Australia)

^d ROYAL DARWIN HOSPITAL   (Australia)

Author keywords

Genotype; Hepatitis B virus; Molecular epidemiology; Phylogenetic analysis; Recombinant; Recombination

Indexed keywords

GENOTYPE; HEPATITIS B VIRUS; MOLECULAR EPIDEMIOLOGY; PHYLOGENETIC ANALYSIS; RECOMBINANT; RECOMBINATION;

AMINO ACID SEQUENCE; AUSTRALIA; BASE SEQUENCE; CARCINOMA, HEPATOCELLULAR; DNA MUTATIONAL ANALYSIS; DNA, VIRAL; GENETIC VARIATION; GENOME, VIRAL; GENOTYPE; HEPATITIS B E ANTIGENS; HEPATITIS B VIRUS; HEPATITIS B, CHRONIC; HUMANS; LIVER NEOPLASMS; MOLECULAR SEQUENCE DATA; MUTATION; PHYLOGEOGRAPHY; POPULATION GROUPS; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA;

EID: 84893717986     PISSN: 01466615     EISSN: 10969071     Source Type: Journal    
DOI: 10.1002/jmv.23888     Document Type: Article

References (44)

1. Ahn SH, Yuen L, Han KH, Littlejohn M, Chang HY, Damerow H, Ayres A, Heo J, Locarnini S, Revill PA. 2010. Molecular and clinical characteristics of hepatitis B virus in Korea. J Med Virol 82:1126-1134.
2. Alter HJ, Blumberg BS. 1966. Further studies on a "new" human isoprecipitin system (Australia antigen). Blood 27:297-309.
3. Blumberg BS, Alter HJ, Visnich S. 1965. A "new" antigen in leukemia sera. JAMA 191:541-546.
4. Chen CJ, Yang HI. 2011. Natural history of chronic hepatitis B REVEALed. J Gastroenterol Hepatol 26:628-638.
5. Chen BF, Liu CJ, Jow GM, Chen PJ, Kao JH, Chen DS. 2006. High prevalence and mapping of pre-S deletion in hepatitis B virus carriers with progressive liver diseases. Gastroenterology 130:1153-1168.
6. Cho EY, Kim HC, Choi CS, Shin SR, Park C, So HS, Kim HJ, Park R, Cho JH, Moon HB. 2010. Nucleotide changes related to hepatocellular carcinoma in the enhancer 1/x-promoter of hepatitis B virus subgenotype C2 in cirrhotic patients. Cancer Sci 101:1905-1912.
7. Cunningham J, Rumbold AR, Zhang X, Condon JR. 2008. Incidence, aetiology, and outcomes of cancer in Indigenous peoples in Australia. Lancet Oncol 9:585-595.
8. Davies J, Littlejohn M, Locarnini SA, Whiting S, Hajkowicz K, Cowie BC, Bowden DS, Tong SY, Davis JS. 2013. The molecular epidemiology of hepatitis B in the Indigenous people of northern Australia. J Gastroenterol Hepatol 28:1234-1241.
9. Dent E, Selvey CE, Bell A, Davis J, McDonald MI. 2010. Incomplete protection against hepatitis B among remote Aboriginal adolescents despite full vaccination in infancy. Commun Dis Intell Q Rep 34:435-439.
10. Fattovich G, Bortolotti F, Donato F. 2008. Natural history of chronic hepatitis B: Special emphasis on disease progression and prognostic factors. J Hepatol 48:335-352.
11. Gunther S, Li BC, Miska S, Kruger DH, Meisel H, Will H. 1995. A novel method for efficient amplification of whole hepatitis B virus genomes permits rapid functional analysis and reveals deletion mutants in immunosuppressed patients. J Virol 69:5437-5444.
12. Holman CD, Quadros CF, Bucens MR, Reid PM. 1987. Occurrence and distribution of hepatitis B infection in the aboriginal population of Western Australia. Aust N Z J Med 17:518-525.
13. Jazayeri MS, Basuni AA, Cooksley G, Locarnini S, Carman WF. 2004. Hepatitis B virus genotypes, core gene variability and ethnicity in the Pacific region. J Hepatol 41:139-146.
14. Jilg W, Delhoune C, Deinhardt F, Roumeliotou-Karayannis AJ, Papaevangelou GJ, Mushahwar IK, Overby LR. 1984. Hepatitis B surface antigen (HBsAg) subtype-specific antibodies in persons vaccinated against hepatitis B. J Med Virol 13:171-178.
15. Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: Improvements in performance and usability. Mol Biol Evol 30:772-780.
16. Kay A, Zoulim F. 2007. Hepatitis B virus genetic variability and evolution. Virus Res 127:164-176.
17. Kim JK, Chang HY, Lee JM, Baatarkhuu O, Yoon YJ, Park JY, Kim do Y, Han KH, Chon CY, Ahn SH. 2009. Specific mutations in the enhancer II/core promoter/precore regions of hepatitis B virus subgenotype C2 in Korean patients with hepatocellular carcinoma. J Med Virol 81:1002-1008.
18. Kramvis A, Kew MC. 2007. Epidemiology of hepatitis B virus in Africa, its genotypes and clinical associations of genotypes. Hepatol Res 37:S9-S19.
19. Kramvis A, Kew M, Francois G. 2005. Hepatitis B virus genotypes. Vaccine 23:2409-2423.
20. Kramvis A, Arakawa K, Yu MC, Nogueira R, Stram DO, Kew MC. 2008. Relationship of serological subtype, basic core promoter and precore mutations to genotypes/subgenotypes of hepatitis B virus. J Med Virol 80:27-46.
21. Lin CL, Kao JH. 2011. The clinical implications of hepatitis B virus genotype: Recent advances. J Gastroenterol Hepatol 26:123-130.
22. Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG, Ingersoll R, Sheppard HW, Ray SC. 1999. Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152-160.
23. Lozano R, Naghavi M, Foreman K, Lim S, Shibuya K, Aboyans V, Abraham J, Adair T, Aggarwal R, Ahn SY, Alvarado M, Anderson HR, Anderson LM, Andrews KG, Atkinson C, Baddour LM, Barker-Collo S, Bartels DH, Bell ML, Benjamin EJ, Bennett D, Bhalla K, Bikbov B, BinAbdulhak A, Birbeck G, Blyth F, Bolliger I, Boufous S, Bucello C, Burch M, Burney P, Carapetis J, Chen H, Chou D, Chugh SS, Coffeng LE, Colan SD, Colquhoun S, Colson KE, Condon J, Connor MD, Cooper LT, Corriere M, Cortinovis M, de Vaccaro KC, Couser W, Cowie BC, Criqui MH, Cross M, Dabhadkar KC, Dahodwala N, De Leo D, Degenhardt L, Delossantos A, Denenberg J, DesJarlais DC, Dharmaratne SD, Dorsey ER, Driscoll T, Duber H, Ebel B, Erwin PJ, Espindola P, Ezzati M, Feigin V, Flaxman AD, Forouzanfar MH, Fowkes FG, Franklin R, Fransen M, Freeman MK, Gabriel SE, Gakidou E, Gaspari F, Gillum RF, Gonzalez-Medina D, Halasa YA, Haring D, Harrison JE, Havmoeller R, Hay RJ, Hoen B, Hotez PJ, Hoy D, Jacobsen KH, James SL, Jasrasaria R, Jayaraman S, Johns N, Karthikeyan G, Kassebaum N, Keren A, Khoo JP, Knowlton LM, Kobusingye O, Koranteng A, Krishnamurthi R, Lipnick M, Lipshultz SE, Ohno SL, Mabweijano J, MacIntyre MF, Mallinger L, March L, Marks GB, Marks R, Matsumori A, Matzopoulos R, Mayosi BM, McAnulty JH, McDermott MM, McGrath J, Mensah GA, Merriman TR, Michaud C, Miller M, Miller TR, Mock C, Mocumbi AO, Mokdad AA, Moran A, Mulholland K, Nair MN, Naldi L, Narayan KM, Nasseri K, Norman P, O'Donnell M, Omer SB, Ortblad K, Osborne R, Ozgediz D, Pahari B, Pandian JD, Rivero AP, Padilla RP, Perez-Ruiz F, Perico N, Phillips D, Pierce K, Pope CA, III, Porrini E, Pourmalek F, Raju M, Ranganathan D, Rehm JT, Rein DB, Remuzzi G, Rivara FP, Roberts T, De Leon FR, Rosenfeld LC, Rushton L, Sacco RL, Salomon JA, Sampson U, Sanman E, Schwebel DC, Segui-Gomez M, Shepard DS, Singh D, Singleton J, Sliwa K, Smith E, Steer A, Taylor JA, Thomas B, Tleyjeh IM, Towbin JA, Truelsen T, Undurraga EA, Venketasubramanian N, Vijayakumar L, Vos T, Wagner GR, Wang M, Wang W, Watt K, Weinstock MA, Weintraub R, Wilkinson JD, Woolf AD, Wulf S, Yeh PH, Yip P, Zabetian A, Zheng ZJ, Lopez AD, Murray CJ, AlMazroa MA, Memish ZA. 2012. Global and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: A systematic analysis for the Global Burden of Disease Study 2010. Lancet 380:2095-2128.
24. MacLachlan JH, Cowie BC. 2012. Liver cancer is the fastest increasing cause of cancer death in Australians. Med J Aust 197:492-493.
25. MacLachlan JH, Allard N, Towell V, Cowie BC. 2013. The burden of chronic hepatitis B virus infection in Australia, 2011. Aust N Z J Public Health 37:416-422.
26. Matthews GV, Robotin M, editors. 2008. B positive-All you wanted to know about hepatitis B: A guide for primary care providers: Australasian Society for HIV Medicine. Darlinghurst: Australasian Society for HIV Medicine (ASHM). 126 p.
27. Norder H, Courouce AM, Coursaget P, Echevarria JM, Lee SD, Mushahwar IK, Robertson BH, Locarnini S, Magnius LO. 2004. Genetic diversity of hepatitis B virus strains derived worldwide: Genotypes, subgenotypes, and HBsAg subtypes. Intervirology 47:289-309.
28. O'Connell JF, Allen J. 2004. Dating the colonization of Sahul (Pleistocene Australia-New Guinea): A review of recent research. J Archaeol Sci 31:835-853.
29. Papatheodoridis GV, Lampertico P, Manolakopoulos S, Lok A. 2010. Incidence of hepatocellular carcinoma in chronic hepatitis B patients receiving nucleos(t)ide therapy: A systematic review. J Hepatol 53:348-356.
30. Paraskevis D, Magiorkinis G, Magiorkinis E, Ho SY, Belshaw R, Allain JP, Hatzakis A. 2013. Dating the origin and dispersal of hepatitis B virus infection in humans and primates. Hepatology 57:908-916.
31. Preikschat P, Gunther S, Reinhold S, Will H, Budde K, Neumayer HH, Kruger DH, Meisel H. 2002. Complex HBV populations with mutations in core promoter, C gene, and pre-S region are associated with development of cirrhosis in long-term renal transplant recipients. Hepatology 35:466-477.
32. Price CA, Baker E. 1976. Origins of Pacific Island Laborers in Queensland, 1863-1904-Research note. J Pac Hist 11:106-121.
33. Rasmussen M, Guo X, Wang Y, Lohmueller KE, Rasmussen S, Albrechtsen A, Skotte L, Lindgreen S, Metspalu M, Jombart T, Kivisild T, Zhai W, Eriksson A, Manica A, Orlando L, De La Vega FM, Tridico S, Metspalu E, Nielsen K, Avila-Arcos MC, Moreno-Mayar JV, Muller C, Dortch J, Gilbert MT, Lund O, Wesolowska A, Karmin M, Weinert LA, Wang B, Li J, Tai S, Xiao F, Hanihara T, van Driem G, Jha AR, Ricaut FX, de Knijff P, Migliano AB, Gallego Romero I, Kristiansen K, Lambert DM, Brunak S, Forster P, Brinkmann B, Nehlich O, Bunce M, Richards M, Gupta R, Bustamante CD, Krogh A, Foley RA, Lahr MM, Balloux F, Sicheritz-Ponten T, Villems R, Nielsen R, Wang J, Willerslev E. 2011. An Aboriginal Australian genome reveals separate human dispersals into Asia. Science 334:94-98.
34. Revill PA, Littlejohn M, Ayres A, Yuen L, Colledge D, Bartholomeusz A, Sasaduesz J, Lewin SR, Dore GJ, Matthews GV, Thio CL, Locarnini SA. 2007. Identification of a novel hepatitis B virus precore/core deletion mutant in HIV/hepatitis B virus co-infected individuals. AIDS 21:1701-1710.
35. Roberts RG, Jones R, Smith MA. 1990. Thermoluminescence dating of a 50, 000-year-old human occupation site in Northern Australia. Nature 345:153-156.
36. Simmonds P. 2012. SSE: A nucleotide and amino acid sequence analysis platform. BMC Res Notes 5:50.
37. Simmonds P, Midgley S. 2005. Recombination in the genesis and evolution of hepatitis B virus genotypes. J Virol 79:15467-15476.
38. Sugauchi F, Mizokami M, Orito E, Ohno T, Kato H, Suzuki S, Kimura Y, Ueda R, Butterworth LA, Cooksley WG. 2001. A novel variant genotype C of hepatitis B virus identified in isolates from Australian Aborigines: Complete genome sequence and phylogenetic relatedness. J Gen Virol 82:883-892.
39. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEG A5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731-2739.
40. Tatematsu K, Tanaka Y, Kurbanov F, Sugauchi F, Mano S, Maeshiro T, Nakayoshi T, Wakuta M, Miyakawa Y, Mizokami M. 2009. A genetic variant of hepatitis B virus divergent from known human and ape genotypes isolated from a Japanese patient and provisionally assigned to new genotype J. J Virol 83:10538-10547.
41. Wood N, Warlow M, Quinn H, Selvey C, Lum G, McIntyre P, Kaldor J. 2008. Establishment of a surveillance system (utilising Midwifes Data Collection Systems) for monitoring the impact of hepatitis B vaccination on the population prevalence of chronic hepatitis B virus infection in Australia. Aust N Z J Public Health 32:272-275.
42. Yang HI, Yeh SH, Chen PJ, Iloeje UH, Jen CL, Su J, Wang LY, Lu SN, You SL, Chen DS, Liaw YF, Chen CJ. 2008. Associations between hepatitis B virus genotype and mutants and the risk of hepatocellular carcinoma. J Natl Cancer Inst 100:1134-1143.
43. Yin J, Xie J, Liu S, Zhang H, Han L, Lu W, Shen Q, Xu G, Dong H, Shen J, Zhang J, Han J, Wang L, Liu Y, Wang F, Zhao J, Zhang Q, Ni W, Wang H, Cao G. 2011. Association between the various mutations in viral core promoter region to different stages of hepatitis B, ranging of asymptomatic carrier state to hepatocellular carcinoma. Am J Gastroenterol 106:81-92.
44. Yuen LK, Ayres A, Littlejohn M, Colledge D, Edgely A, Maskill WJ, Locarnini SA, Bartholomeusz A. 2007. SeqHepB: A sequence analysis program and relational database system for chronic hepatitis B. Antiviral Res 75:64-74.