Evidence for genetic reassortment between human rotaviruses by full genome sequencing of G3P[4] and G2P[4] strains co-circulating in India

Tropical Medicine and Health

Volumn 41, Issue 1, 2013, Pages 13-20

  Hoa Tran, T N ^a   Nakagomi, Toyoko ^a   Nakagomi, Osamu ^a  

^a NAGASAKI UNIVERSITY   (Japan)

Author keywords

Full genome sequencing; G3P 4 ; Human rotavirus; Mixed infection; Reassortment

Indexed keywords

ARTICLE; GENE SEQUENCE; GENETIC REASSORTMENT; GENOTYPE; HUMAN; MIXED INFECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; ROTAVIRUS; ROTAVIRUS INFECTION; VIRUS STRAIN;

EID: 84875208378     PISSN: 13488945     EISSN: 13494147     Source Type: Journal    
DOI: 10.2149/tmh.2012-29     Document Type: Article

References (38)

1. Cunliffe NA, Nakagomi O. Reoviruses. In: Greenwood D, Slack RCB, Barer MR, Irving WB, eds. Medical Microbiology. 18th ed. London: Churchill Livingstone; 2012. pp. 559-565.
2. Tate JE, Burton AH, Boschi-Pinto C, Steele AD, Duque J, Parashar UD; WHO-coordinated Global Rotavirus Surveillance Network. 2008 estimate of worldwide rotavirusassociated mortality in children younger than 5 years before the introduction of universal rotavirus vaccination programmes: a systematic review and meta-analysis. Lancet Infect Dis 2012; 12: 136-141.
3. Estes MK, Kapikian AZ. Rotaviruses and their replication. In: Knipe DM, Howley PM, eds. Fields Virology. 5th ed. Philadelphia, PA: Lippincott, Williams & Wilkins; 2007 pp. 1917-1974.
4. Gentsch JR, Laird AR, Bielfelt B, Griffin DD, Banyai K, Ramachandran M, Jain V, Cunliffe NA, Nakagomi O, Kirkwood CD, Fischer TK, Parashar UD, Bresee JS, Jiang B, Glass RI. Serotype diversity and reassortment between human and animal rotavirus strains: implications for rotavirus vaccine programs. J Infect Dis 2005; 192 Suppl 1: S146-S159.
5. Kawai K, O'Brien MA, Goveia MG, Mast TC, El Khoury AC. Burden of rotavirus gastroenteritis and distribution of rotavirus strains in Asia: A systematic review. Vaccine 2012; 30: 1244-1254.
6. Iturriza-Gómara M, Dallman T, Bányai K, Böttiger B, Buesa J, Diedrich S, Fiore L, Johansen K, Koopmans M, Korsun N, Koukou D, Kroneman A, László B, Lappalainen M, Maunula L, Marques AM, Matthijnssens J, Midgley S, Mladenova Z, Nawaz S, Poljsak-Prijatelj M, Pothier P, Ruggeri FM, Sanchez-Fauquier A, Steyer A, Sidaraviciute-Ivaskeviciene I, Syriopoulou V, Tran AN, Usonis V, van Ranst M, de Rougemont A, Gray J. Rotavirus genotypes co-circulating in Europe between 2006 and 2009 as determined by EuroRotaNet, a pan-European collaborative strain surveillance network. Epidemiol Infect 2011; 139: 895-909.
7. Bányai K, László B, Duque J, Steele AD, Nelson EAS, Gentsch JR, Parashar UD. Systematic review of regional and temporal trends in global rotavirus strain diversity in the pre rotavirus vaccine era: insights for understanding the impact of rotavirus vaccination programs. Vaccine 2012; 30 Suppl 1: A122-A130.
8. Matthijnssens J, Ciarlet M, Heiman E, Arijs I, Delbeke T, McDonald SM, Palombo EA, Iturriza-Gómara M, Maes P, Patton JT, Rahman M, van Ranst M. Full genome-based classification of rotaviruses reveals a common origin between human Wa-like and porcine rotavirus strains and human DS-1-like and bovine rotavirus strains. J Virol 2008; 82: 3204-3219.
9. Matthijnssens J, Ciarlet M, McDonald SM, Attoui H, Bányai K, Brister JR, Buesa J, Esona MD, Estes MK, Gentsch JR, Iturriza-Gómara M, Johne R, Kirkwood CD, Martella V, Mertens PPC, Nakagomi O, Parreño V, Rahman M, Ruggeri FM, Saif LJ, Santos N, Steyer A, Taniguchi K, Patton JT, Desselberger U, van Ranst M. Uniformity of rotavirus strain nomenclature proposed by the Rotavirus Classification Working Group (RCWG). Arch Virol 2011; 156: 1397-1413.
10. Matthijnssens J, van Ranst M. Genotype constellation and evolution of group A rotaviruses infecting humans. Curr Opin Virol 2012; 2: 426-433.
11. Nakagomi O, Nakagomi T. Molecular evidence for naturally occurring single VP7 gene substitution reassortant between human rotaviruses belonging to two different genogroups. Arch Virol 1991; 119: 67-81.
12. Kaga E, Nakagomi O. Recurrent circulation of single nonstructural gene substitution reassortants among human rotaviruses with a short RNA pattern. Arch Virol 1994; 136: 63-71.
13. Matthijnssens J, Rahman M, Yang X, Delbeke T, Arijs I, Kabue J-P, Muyembe J-J, van Ranst M. G8 rotavirus strains isolated in the Democratic Republic of Congo belong to the DS-1-like genogroup. J Clin Microbiol 2006; 44: 1801-1809.
14. Ghosh S, Paul SK, Yamamoto D, Nagashima S, Kobayashi N. Full genomic analyses of human rotavirus strains possessing the rare P[8]b VP4 subtype. Infect Genet Evol 2011; 11: 1481-1486.
15. Mukherjee A, Ghosh S, Bagchi P, Dutta D, Chattopadhyay S, Kobayashi N, Chawla-Sarkar M. Full genomic analyses of human rotavirus G4P[4], G4P[6], G9P[19] and G10P[6] strains from North-eastern India: evidence for interspecies transmission and complex reassortment events. Clin Microbiol Infect 2011; 17: 1343-1346.
16. Bányai K, Mijatovic-Rustempasic S, Hull JJ, Esona MD, Freeman MM, Frace AM, Bowen MD, Gentsch JR. Sequencing and phylogenetic analysis of the coding region of six common rotavirus strains: evidence for intragenogroup reassortment among co-circulating G1P[8] and G2P[4] strains from the United States. J Med Virol 2011; 83: 532-539.
17. Heylen E, Zeller M, Ciarlet M, De Coster S, van Ranst M, Matthijnssens J. Complete genetic characterization of human G2P[6] and G3P[6] rotavirus strains. Infect Genet Evol 2013; 13: 27-35.
18. Shintani T, Ghosh S, Wang Y-H, Zhou X, Zhou D-J, Kobayashi N. Whole genomic analysis of human G1P[8] rotavirus strains from different age groups in China. Viruses 2012; 4: 1289-1304.
19. Asmah RH, Green J, Armah GE, Gallimore CI, Gray JJ, Iturriza-Gómara M, Anto F, Oduro A, Binka FN, Brown DW, Cutts F. Rotavirus G and P genotypes in rural Ghana. J Clin Microbiol 2001; 39: 1981-1984.
20. Binka FN, Anto FK, Oduro AR, Awini EA, Nazzar AK, Armah GE, Asmah RH, Hall AJ, Cutts F, Alexander N, Brown D, Green J, Gray J, Iturriza-Gómara M; Navrongo Rotavirus Research Group. Incidence and risk factors of paediatric rotavirus diarrhoea in northern Ghana. Trop Med Int Health 2003; 8: 840-846.
21. Duan ZJ, Liu N, Yang SH, Zhang J, Sun LW, Tang JY, Jin Y, Du ZQ, Xu J, Wu QB, Tong ZL, Gong ST, Qian Y, Ma JM, Liao XC, Widdowson MA, Jiang B, Fang ZY. Hospital-based surveillance of rotavirus diarrhea in the People's Republic of China, August 2003-July 2007. J Infect Dis 2009; 200 Suppl 1: S167-S173.
22. Muhsen K, Shulman L, Rubinstein U, Kasem E, Kremer A, Goren S, Zilberstein I, Chodick G, Ephros M, Cohen D; TAU-HCLV Rota Study Group. Incidence, characteristics, and economic burden of rotavirus gastroenteritis associated with hospitalization of israeli children 5 years of age, 2007-2008. J Infect Dis 2009; 200 Suppl 1: S254-S263.
23. Todd S, Page NA, Duncan Steele A, Peenze I, Cunliffe NA. Rotavirus strain types circulating in Africa: review of studies published during 1997-2006. J Infect Dis 2010; 202 Suppl: S34-S42.
24. Nakagomi T, Gentsch JR, Das BK, Kumar R, Bhan MK, Glass RI, Nakagomi O. Molecular characterization of serotype G2 and G3 human rotavirus strains that have an apparently identical electropherotype of the short RNA pattern. Arch Virol 2002; 147: 2187-2195.
25. Gentsch JR, Glass RI, Woods P, Gouvea V, Gorziglia M, Flores J, Das BK, Bhan MK. Identification of group A rotavirus gene 4 types by polymerase chain reaction. J Clin Microbiol 1992; 30: 1365-1373.
26. Doan YH, Nakagomi T, Nakagomi O. Repeated circulation over 6years of intergenogroup mono-reassortant G2P[4] rotavirus strains with genotype N1 of the NSP2 gene. Infect Genet Evol 2012; 12: 1202-1212.
27. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28: 2731-2739.
28. Maes P, Matthijnssens J, Rahman M, Van Ranst M. RotaC: a web-based tool for the complete genome classification of group A rotaviruses. BMC Microbiol 2009; 9: 238.
29. Watanabe M, Nakagomi T, Koshimura Y, Nakagomi O. Direct evidence for genome segment reassortment between concurrently-circulating human rotavirus strains. Arch Virol 2001; 146: 557-570.
30. Chakravarti A, Chauhan MS, Sharma A, Verma V. Distribution of human rotavirus G and P genotypes in a hospital setting from Northern India. Southeast Asian J Trop Med Public Health 2010; 41: 1145-1152.
31. Wu FT, Liang SY, Tsao KC, Huang CG, Lin CY, Lin JS, Su CY, Eng HL, Yang JY, Chen PJ, Yang CF. Hospitalbased surveillance and molecular epidemiology of rotavirus infection in Taiwan, 2005-2007. Vaccine 2009; 27 Suppl 5: F50-F54.
32. Lee SY, Hong SK, Lee SG, Suh CI, Park SW, Lee JH, Kim JH, Kim DS, Kim HM, Jang YT, Ma SH, Kim SY, Sohn YS, Kang JH, Paik SY. Human rotavirus genotypes in hospitalized children, South Korea, April 2005 to March 2007. Vaccine 2009; 27 Suppl 5: F97-F101.
33. Rosa E, Silva ML, Pires de Carvalho I, Gouvea V. 1998-1999 rotavirus seasons in Juiz de Fora, Minas Gerais, Brazil: detection of an unusual G3P[4] epidemic strain. J Clin Microbiol 2002; 40(8): 2837-2842.
34. Adhikary AK, Zhou Y, Kakizawa J, Numaga J, Akihara S, Fang ZY, Ushijima H. Distribution of rotavirus VP4 genotype and VP7 serotype among Chinese children. Acta Paediatr Jpn 1998; 40: 641-643.
35. Wu H, Taniguchi K, Wakasugi F, Ukae S, Chiba S, Ohseto M, Hasegawa A, Urasawa T, Urasawa S. Survey on the distribution of the gene 4 alleles of human rotaviruses by polymerase chain reaction. Epidemiol Infect 1994; 112(3): 615-622.
36. Fang ZY, Yang H, Qi J, Zhang J, Sun LW, Tang JY, Ma L, Du ZQ, He AH, Xie JP, Lu YY, Ji ZZ, Zhu BQ, Wu HY, Lin SE, Xie HP, Griffin DD, Ivanoff B, Glass RI, Gentsch JR. Diversity of rotavirus strains among children with acute diarrhea in China: 1998-2000 surveillance study. J Clin Microbiol 2002; 40: 1875-1878.
37. Fang ZY, Wang B, Kilgore PE, Bresee JS, Zhang LJ, Sun LW, Du ZQ, Tang JY, Hou AC, Shen H, Song XB, Nyambat B, Hummelman E, Xu ZY, Glass RI. Sentinel hospital surveillance for rotavirus diarrhea in the People's Republic of China, August 2001-July 2003. J Infect Dis 2005; 192 Suppl 1: S94-S99.
38. Li D, Liu N, Yu J, Zhang Q, Cui S, Zhang DL, Yang S-H, Cao DJ, Xu ZQ, Duan ZJ. Molecular epidemiology of G9 rotavirus strains in children with diarrhoea hospitalized in Mainland China from January 2006 to December 2007. Vaccine 2009; 27 Suppl 5: F40-F45.