Whole genomic analyses of asymptomatic human G1P[6], G2P[6] and G3P[6] rotavirus strains reveal intergenogroup reassortment events and genome segments of artiodactyl origin

Infection, Genetics and Evolution

Volumn 16, Issue , 2013, Pages 165-173

  Ghosh, Souvik ^a   Urushibara, Noriko ^a   Chawla Sarkar, Mamta ^b   Krishnan, Triveni ^b   Kobayashi, Nobumichi ^a  

^a SAPPORO MEDICAL UNIVERSITY SCHOOL OF MEDICINE   (Japan)

^b NATIONAL INSTITUTE OF CHOLERA AND ENTERIC DISEASES   (India)

Author keywords

Artiodactyl like genome segments; Human group A rotavirus; Intergenogroup reassortment; P 6 strains; Whole genomic analysis

Indexed keywords

NONSTRUCTURAL PROTEIN 1; NONSTRUCTURAL PROTEIN 2; NONSTRUCTURAL PROTEIN 3; NONSTRUCTURAL PROTEIN 4; NONSTRUCTURAL PROTEIN 5; PROTEIN VP1; PROTEIN VP2; PROTEIN VP3; PROTEIN VP6; PROTEIN VP7;

AMINO ACID SUBSTITUTION; ARTICLE; ASYMPTOMATIC INFECTION; BIOGENESIS; CHILD; CONTROLLED STUDY; GENETIC CODE; GENETIC REASSORTMENT; GENETIC VARIABILITY; GENOME ANALYSIS; GENOTYPE; HUMAN; HUMAN ROTAVIRUS; INFECTIOUS DIARRHEA; NONHUMAN; NP1 GENE; NP2 GENE; NP3 GENE; NP4 GENE; NP5 GENE; NUCLEOTIDE SEQUENCE; PHYLOGENETIC TREE; PRIORITY JOURNAL; ROTAVIRUS INFECTION; VIRUS GENE; VIRUS GENOME; VIRUS ISOLATION; VIRUS STRAIN; VP1 GENE; VP2 GENE; VP3 GENE; VP6 GENE; VP7 GENE;

ANIMALS; ARTIODACTYLA; GENOME, VIRAL; GENOTYPING TECHNIQUES; HUMANS; PHYLOGENY; REASSORTANT VIRUSES; ROTAVIRUS; ROTAVIRUS INFECTIONS;

EID: 84875254409     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2012.12.019     Document Type: Article

References (36)

1. Albert M.J., Unicomb L.E., Bishop R.F. Cultivation and characterization of human rotaviruses with " super short" RNA patterns. J. Clin. Microbiol. 1987, 25:183-185.
2. Bányai K., Papp H., Dandár E., Molnár P., Mihály I., Van Ranst M., Martella V., Matthijnssens J. Whole genome sequencing and phylogenetic analysis of a zoonotic human G8P[14] rotavirus strain. Infect. Genet. Evol. 2010, 10:1140-1144.
3. Chrystie I.L., Totterdell B., Baker M.J., Scopes J.W., Banatvala J.E. Letter rotavirus infections in a maternity unit. Lancet ii 1975, 79.
4. Chrystie I.L., Totterdell B.M., Banatvala J.E. Asymptomatic endemic rotavirus infections in the newborn. Lancet 1978, 1:1176-1178.
5. El Sherif M., Esona M.D., Wang Y., Gentsch J.R., Jiang B., Glass R.I., Abou Baker S., Klena J.D. Detection of the first G6P[14] human rotavirus strain from a child with diarrhea in Egypt. Infect. Genet. Evol. 2011, 11:1436-1442.
6. Estes M.K., Kapikian A.Z. Rotaviruses and their Replication. Fields Virology 2007, 1917-1974. Lippincott, Williams & Wilkins, Philadelphia. fifth ed. B.N. Fields, D.M. Knipe, P.M. Howley, D.E. Griffin, R.A. Lamb, M.A. Martin, B. Roizman, S.E. Straus (Eds.).
7. Ghosh S., Kobayashi N. Whole-genomic analysis of rotavirus strains: current status and future prospects. Future Microbiol. 2011, 6:1049-1065.
8. Ghosh S., Adachi N., Gatheru Z., Nyangao J., Yamamoto D., Ishino M., Urushibara N., Kobayashi N. Whole-genome analysis reveals the complex evolutionary dynamics of Kenyan G2P[4] human rotavirus strains. J. Gen. Virol. 2011, 92:2201-2208.
9. Ghosh S., Shintani T., Urushibara N., Taniguchi K., Kobayashi N. Whole genomic analysis of a human G1P[9] rotavirus strain reveals intergenogroup reassortment events. J. Gen. Virol. 2012, 93:1700-1705.
10. Gorziglia M., Hoshino Y., Nishikawa K., Maloy W.L., Jones R.W., Kapikian A.Z., Chanock R.M. Comparative sequence analysis of the genomic segment 6 of four rotaviruses each with a different subgroup specificity. J. Gen. Virol. 1988, 69:1659-1669.
11. Heiman E.M., McDonald S.M., Barro M., Taraporewala Z.F., Bar-Magen T., Patton J.T. Group A human rotavirus genomics: evidence that gene constellations are influenced by viral protein interactions. J. Virol. 2008, 82:11106-11116.
12. 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. doi 2012, 10.1016/j.meegid.2012.08.019.
13. Hoshino Y., Jones R.W., Ross J., Santos N., Kapikian A.Z. Human rotavirus strains bearing VP4 gene P[6] allele recovered from asymptomatic or symptomatic infections share similar, if not identical, VP4 neutralization specificities. Virology 2003, 10(316):1-8.
14. Hoshino Y., Saif L.J., Kang S.Y., Sereno M.M., Chen W.K., Kapikian A.Z. Identification of group A rotavirus genes associated with virulence of a porcine rotavirus and host range restriction of a human rotavirus in the gnotobiotic piglet model. Virology 1995, 209:274-280.
15. Hoshino Y., Wyatt R.G., Flores J., Midthun K., Kapikian A.Z. Serotypic characterization of rotaviruses derived from asymptomatic human neonatal infections. J. Clin. Microbiol. 1985, 21:425-430.
16. Jere K.C., Mlera L., O'Neill H.G., Potgieter A.C., Page N.A., Seheri M.L., Van Dijk A.A. Whole genome analyses of African G2, G8, G9, and G12 rotavirus strains using sequence-independent amplification and 454® pyrosequencing. J. Med. Virol. 2011, 83:2018-2042.
17. Kirkwood C.D., Palombo E.A. Genetic characterization of the rotavirus nonstructural protein, NSP4. Virology 1997, 236:258-265.
18. Kirkwood C.D., Coulson B.S., Bishop R.F. G3P2 rotaviruses causing diarrhoeal disease in neonates differ in VP4, VP7 and NSP4 sequence from G3P2 strains causing asymptomatic neonatal infection. Arch. Virol. 1996, 141:1661-1676.
19. Martella V., Bányai K., Ciarlet M., Iturriza-Gómara M., Lorusso E., De Grazia S., Arista S., Decaro N., Elia G., Cavalli A., Corrente M., Lavazza A., Baselga R., Buonavoglia C. Relationships among porcine and human P[6] rotaviruses: evidence that the different human P[6] lineages have originated from multiple interspecies transmission events. Virology 2006, 344:509-519.
20. Martella V., Bányai K., Matthijnssens J., Buonavoglia C., Ciarlet M. Zoonotic aspects of rotaviruses. Vet. Microbiol. 2010, 140:246-255.
21. Martella V., Potgieter A.C., Lorusso E., De Grazia S., Giammanco G.M., Matthijnssens J., Bányai K., Ciarlet M., Lavazza A. A feline rotavirus G3P[9] carries traces of multiple reassortment events and resembles rare human G3P[9] rotaviruses. J. Gen. Virol. 2011, 92:1214-1221.
22. Matthijnssens J., Bilcke J., Ciarlet M., Martella V., Bányai K., Rahman M., Zeller M., Beutels P., Van Damme P., Van Ranst M. Rotavirus disease and vaccination: impact on genotype diversity. Future Microbiol. 2009, 4:1303-1316.
23. Matthijnssens J., Potgieter C.A., Ciarlet M., Parreno V., Martella V., Banyai K., Garaicoechea L., Palombo E.A., Novo L., Zeller M., Arista S., Gerna G., Rahman M., Van Ranst M. Are human P[14] rotavirus strains the result of interspecies transmissions from sheep or other ungulates that belong to the mammalian order Artiodactyla?. J. Virol. 2009, 83:2917-2929.
24. Matthijnssens J., Van Ranst M. Genotype constellation and evolution of group A rotaviruses infecting humans. Curr. Opin. Virol. 2012, 2:426-433.
25. Pager C.T., Alexander J.J., Steele A.D. South African G4P[6] asymptomatic and symptomatic neonatal rotavirus strains differ in their NSP4, VP8*, and VP7 genes. J. Med. Virol. 2000, 62:208-216.
26. Palombo E.A., Bishop R.F. Genetic analysis of NSP1 genes of human rotaviruses isolated from neonates with asymptomatic infection. J. Gen. Virol. 1994, 75:3635-3639.
27. Perez-Schael I., Daoud G., White L., Urbina G., Daoud N., Perez M., Flores J. Rotavirus shedding by newborn children. J. Med. Virol. 1984, 14:127-136.
28. Rippinger C.M., Patton J.T., McDonald S.M. Complete genome sequence analysis of candidate human rotavirus vaccine strains RV3 and 116E. Virology 2010, 405:201-213.
29. Rodger S.M., Bishop R.F., Birch C., McLean B., Holmes I.H. Molecular epidemiology of human rotaviruses in Melbourne, Australia, from 1973 to 1979, as determined by electrophoresis of genome ribonucleic acid. J. Clin. Microbiol. 1981, 13:272-278.
30. Santos N., Hoshino Y. Global distribution of rotavirus serotypes/genotypes and its implication for the development and implementation of an effective rotavirus vaccine. Rev. Med. Virol. 2005, 15:29-56.
31. Santos N., Gouvea V., Timenetsky M.C., Clark H.F., Riepenhoff-Talty M., Garbarg-Chenon A. Comparative analysis of VP8* sequences from rotaviruses possessing M37-like VP4 recovered from children with and without diarrhoea. J. Gen. Virol. 1994, 75:1775-1780.
32. 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.
33. Wang Y.H., Kobayashi N., Nagashima S., Zhou X., Ghosh S., Peng J.S., Hu Q., Zhou D.J., Yang Z.Q. Full genomic analysis of a porcine-bovine reassortant G4P[6] rotavirus strain R479 isolated from an infant in China. J. Med. Virol. 2010, 82:1094-1102.
34. 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, 112:615-622.
35. Yamamoto D., Kawaguchiya M., Ghosh S., Ichikawa M., Numazaki K., Kobayashi N. Detection and full genomic analysis of G6P[9] human rotavirus in Japan. Virus Genes 2011, 43:215-223.
36. Zeller M., Heylen E., De Coster S., Van Ranst M., Matthijnssens J. Full genome characterization of a porcine-like human G9P[6] rotavirus strain isolated from an infant in Belgium. Infect. Genet. Evol. 2012, 12:1492-1500.