Whole-genomic analysis of rotavirus strains: Current status and future prospects

Future Microbiology

Volumn 6, Issue 9, 2011, Pages 1049-1065

  Ghosh, Souvik ^a   Kobayashi, Nobumichi ^a  

^a SAPPORO MEDICAL UNIVERSITY SCHOOL OF MEDICINE   (Japan)

Author keywords

genotype; humans; rotavirus; whole genome

Indexed keywords

PROTEIN VP4; PROTEIN VP7;

ANTIGENICITY; GENETIC CODE; GENETIC LINKAGE; GENETIC REASSORTMENT; GENETIC VARIABILITY; GENOTYPE; NONHUMAN; PRIORITY JOURNAL; REVIEW; ROTAVIRUS; VIRUS GENE; VIRUS GENOME; VIRUS STRAIN; ZOONOSIS;

ANIMALS; GENETIC VARIATION; GENOME, VIRAL; GENOTYPE; HUMANS; ROTAVIRUS; ROTAVIRUS INFECTIONS; ZOONOSES;

ANIMALIA; HUMAN ROTAVIRUS A; ROTAVIRUS; ROTAVIRUS A;

EID: 80053475959     PISSN: 17460913     EISSN: 17460921     Source Type: Journal    
DOI: 10.2217/fmb.11.90     Document Type: Review

References (146)

1. Estes MK, Kapikian AZ. Rotaviruses and their replication. In:Fields Virology (5th Edition) . Knipe DM, Howley PM, Griffin DE, et al. (Eds). Lippincott, Williams & Wilkins, PA, USA, 1917-1974 (2007).
2. Parashar UD, Hummelman EG, Bresee JS, Miller MA, Glass RI. Global illness and deaths caused by rotavirus disease in children. Emerg. Infect. Dis. 9, 565-572 (2003). (Pubitemid 36529515)
3. Parashar UD, Burton A, Lanata C, et al. Global mortality associated with rotavirus disease among children in 2004. J. Infect. Dis. 200(Suppl. 1), S9-S15 (2009).
4. Parashar UD, Gibson CJ, Bresse JS, Glass RI. Rotavirus and severe childhood diarrhea. Emerg. Infect. Dis. 12, 304-306 (2006).
5. Jiang V, Jiang B, Tate J, Parashar UD, Patel MM. Performance of rotavirus vaccines in developed and developing countries. Hum. Vaccin. 6, 532-542 (2010).
6. Greenberg HB, Estes MK. Rotaviruses: from pathogenesis to vaccination. Gastroenterology. 136, 1939-1951 (2009).
7. Matthijnssens J, Bilcke J, Ciarlet M, et al. Rotavirus disease and vaccination: impact on genotype diversity. Future Microbiol. 4(10), 1303-1316 (2009).
8. 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. 15, 29-56 (2005). (Pubitemid 40070041)
9. Kobayashi N, Naik TN, Ahmed MU. Genomic diversity and molecular evolution of group B human rotaviruses. In:Genomic Diversity and Molecular Epidemiology of Rotaviruses. Kobayashi N (Ed). Research Signpost, Trivandrum, India, 91-104 (2003).
10. Fang ZY, Ye Q, Ho MS, Dong H, et al. Investigation of an outbreak of adult diarrhea rotavirus in China. J. Infect. Dis. 160, 948-953 (1989). (Pubitemid 20002761)
11. Barman P, Ghosh S, Samajdar S, et al. RT-PCR based diagnosis revealed importance of human group B rotavirus infection in childhood diarrhoea. J. Clin. Virol. 36, 222-227 (2006). (Pubitemid 43898736)
12. Kuzuya M, Fujii R, Hamano M, et al. Survey of human group C rotaviruses in Japan during the winter of 1992 to 1993. J. Clin. Microbiol. 36, 6-10 (1998). (Pubitemid 28047423)
13. Kuzuya M, Fujii R, Hamano M, Nishijima M, Ogura H. Detection and molecular characterization of human group C rotaviruses in Okayama Prefecture, Japan, between 1986 and 2005. J. Med. Virol. 79, 1219-1228 (2007). (Pubitemid 47015424)
14. Matsumoto K, Hatano M, Kobayashi K, et al. An outbreak of gastroenteritis associated with acute rotaviral infection in schoolchildren. J. Infect. Dis. 160, 611-615 (1989). (Pubitemid 19247642)
15. Nilsson M, Svenungsson B, Hedlund KO, et al. Incidence and genetic diversity of group C rotavirus among adults. J. Infect. Dis. 182, 678-684 (2000).
16. Khamrin P, Peerakome S, Malasao R, et al. Genetic characterization of group C rotavirus isolated from a child hospitalized with acute gastroenteritis in Chiang Mai, Thailand. Virus Genes. 37, 314-321 (2008).
17. Schnagl RD, Boniface K, Cardwell P, et al. Incidence of group C human rotavirus in central Australia and sequence variation of the VP7 and VP4 genes. J. Clin. Microbiol. 42, 2127-2133 (2004). (Pubitemid 38637833)
18. Yamamoto D, Ghosh S, Kuzuya M, et al. Whole-genome characterization of human group C rotaviruses: identification of two lineages in the VP3 gene. J. Gen. Virol. 92, 361-369 (2011).
19. Mackow ER. Group B and C rotaviruses. In:Infections of the Gastrointestinal Tract. Blaser MJ, Smith PD, Ravdin JI, Greenberg HB, Guerrant RL (Eds). Raven Press, NY, USA, 983-1008 (1995).
20. Yang H, Makeyev EV, Kang Z, Ji S, Bamford DH, van Dijk AA. Cloning and sequence analysis of dsRNA segments 5, 6 and 7 of a novel non-group A, B, C adult rotavirus that caused an outbreak of gastroenteritis in China. Virus Res. 106, 15-26 (2004). (Pubitemid 39441301)
21. Alam MM, Kobayashi N, Ishino M, et al. Genetic analysis of an ADRV-N-like novel rotavirus strain B219 detected in a sporadic case of adult diarrhea in Bangladesh. Arch. Virol. 152, 199-208 (2007). (Pubitemid 44974624)
22. Nagashima S, Kobayashi N, Ishino M, et al. Whole genomic characterization of a human rotavirus strain B219 belonging to a novel group of the genus Rotavirus. J. Med. Virol. 80, 2023-2033 (2008).
23. Jiang S, Ji S, Tang Q, Cui X, et al. Molecular characterization of a novel adult diarrhoea rotavirus strain J19 isolated in China and its significance for the evolution and origin of group B rotaviruses. J. Gen. Virol. 89, 2622-2629 (2008).
24. Matthijnssens J, Ciarlet M, Heiman E, et al. 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. 82, 3204-3219 (2008). (Pubitemid 351429901)
25. Dunn SJ, Cross TL, Greenberg HB. Comparison of the rotavirus nonstructural protein NSP1 (NS53) from different species by sequence analysis and northern blot hybridization. Virology 203, 178-183 (1994). (Pubitemid 24260038)
26. Kapikian AZ, Hoshino Y, Chanock RM. Rotaviruses. In:Fields Virology (4th Edition) . Knipe DM, Howley PM, Griffin DE, et al. (Eds). Lippincott, Williams & Wilkins, PA, USA, 1787-1833 (2001)
27. Blackhall J, Fuentes A, Magnusson G. Genetic stability of a porcine rotavirus RNA segment during repeated plaque isolation. Virology 225, 181-190 (1996). (Pubitemid 26390064)
28. Matthijnssens J, Heylen E, Zeller M, Rahman M, Lemey P, Van Ranst M. Phylodynamic analyses of rotavirus genotypes G9 and G12 underscore their potential for swift global spread. Mol. Biol. Evol. 27, 2431-2436 (2010).
29. Zlateva KT, Lemey P, Mos E, Vandamme AM, Van Ranst M. Genetic variability and molecular evolution of the human respiratory syncytial virus subgroup B attachment G protein. J. Virol. 79, 9157-9167 (2005). (Pubitemid 40934827)
30. Rima BK, Earle JA, Baczko K, et al. Sequence divergence of measles virus haemagglutinin during natural evolution and adaptation to cell culture. J. Gen. Virol. 78, 97-106 (1997). (Pubitemid 27067518)
31. Yang JH, Kobayashi N, Wang YH, et al. Phylogenetic analysis of a human group B rotavirus WH-1 detected in China in 2002. J. Med. Virol. 74, 662-667(2004). (Pubitemid 39426109)
32. Rahman M, Hassan ZM, Zafrul H, et al. Sequence analysis and evolution of group B rotaviruses. Virus. Res. 125, 219-225 (2007). (Pubitemid 46613819)
33. Kobayashi N, Alam MM, Kojima K, Ishino M, Sumi A. Genomic diversity and evolution of rotaviruses : an overview. In:Genomic Diversity and Molecular Epidemiology of Rotaviruses . Kobayashi N (Ed). Research Signpost, Trivandrum, India, 75-89 (2003).
34. Palombo EA. Genetic reassortment and interspecies transmission of rotaviruses. In:Genomic Diversity and Molecular Epidemiology of Rotaviruses. Kobayashi N (Ed). Research Signpost, Trivandrum, India, 1-16 (2003).
35. Martella V, Banyai K, Matthijnssens J, Buonavoglia C, Ciarlet M. Zoonotic aspects of rotaviruses. Vet. Microbiol. 140, 246-255 (2010).
36. Ramachandran M, Kirkwood CD, Unicomb L, et al. Molecular characterization of serotype G9 rotavirus strains from a global collection. Virology 278, 436-444 (2000). (Pubitemid 32012778)
37. Laird AR, Gentsch JR, Nakagomi T, Nakagomi O, Glass RI. Characterization of serotype G9 rotavirus strains isolated in the United States and India from 1993 to 2001. J. Clin. Microbiol. 41, 3100-3111 (2003). (Pubitemid 36842307)
38. Desselberger U. Genome rearrangements of rotaviruses. Arch. Virol. Suppl. 12, 37-51 (1996). (Pubitemid 126446211)
39. Taniguchi K, Kojima K, Urasawa S. Nondefective rotavirus mutants with an NSP1 gene which has a deletion of 500 nucleotides, including a cysteine-rich zinc finger motif-encoding region (nucleotides 156 to 248), or which has a nonsense codon at nucleotides 153-155. J. Virol. 70, 4125-4130 (1996).
40. González SA, Mattion NM, Bellinzoni R, Burrone OR. Structure of rearranged genome segment 11 in two different rotavirus strains generated by a similar mechanism. J. Gen. Virol. 70, 1329-1336 (1989). (Pubitemid 19165594)
41. Gorziglia M, Nishikawa K, Fukuhara N. Evidence of duplication and deletion in super short segment 11 of rabbit rotavirus Alabama strain. Virology 170, 587-590 (1989). (Pubitemid 19162572)
42. Giambiagi S, González Rodríguez I, Gómez J, Burrone O. A rearranged genomic segment 11 is common to different human rotaviruses. Arch. Virol. 136(3-4), 415-421 (1994). (Pubitemid 2101796)
43. Kojima K, Taniguchi K, Urasawa T, Urasawa S. Sequence analysis of normal and rearranged NSP5 genes from human rotavirus strains isolated in nature: implications for the occurrence of the rearrangement at the step of plus strand synthesis. Virology 224, 446-452 (1996). (Pubitemid 26364492)
44. Matthijnssens J, Rahman M, Martella V. Full genomic analysis of human rotavirus strain B4106 and lapine rotavirus strain 30/96 provides evidence for interspecies transmission. J. Virol. 80, 3801-3810 (2006).
45. Matsui SM, Mackow ER, Matsuno S, Paul PS, Greenberg HB. Sequence analysis of gene 11 equivalents from "short" and "super short" strains of rotavirus. J. Virol. 64, 120-124 (1990). (Pubitemid 20032609)
46. Gault E, Schnepf N, Poncet D, Servant A, Teran S, Garbarg-Chenon A. A human rotavirus with rearranged genes 7 and 11 encodes a modified NSP3 protein and suggests an additional mechanism for gene rearrangement. J. Virol. 75, 7305-7314 (2001). (Pubitemid 32737988)
47. Alam MM, Kobayashi N, Ishino M, et al. Identical rearrangement of NSP3 genes found in three independently isolated virus clones derived from mixed infection and multiple passages of rotaviruses. Arch. Virol. 153, 555-559 (2008).
48. Matthijnssens J, Rahman M, Van Ranst M. Loop model: mechanism to explain partial gene duplications in segmented dsRNA viruses. Biochem. Biophys. Res. Commun. 340, 140-144 (2006). (Pubitemid 41827658)
49. Cao D, Barro M, Hoshino Y. Porcine rotavirus bearing an aberrant gene stemming from an intergenic recombination of the NSP2 and NSP5 genes is defective and interfering. J. Virol. 82, 6073-6077 (2008). (Pubitemid 351822284)
50. Martínez-Laso J, Román A, Rodriguez M, et al. Diversity of the G3 genes of human rotaviruses in isolates from Spain from 2004 to 2006: cross-species transmission and inter-genotype recombination generates alleles. J. Gen. Virol. 90, 935-943 (2009).
51. Phan TG, Okitsu S, Maneekarn N, Ushijima H. Evidence of intragenic recombination in G1 rotavirus VP7 genes. J. Virol. 81, 10188-10194 (2007). (Pubitemid 350067721)
52. Parra GI, Bok K, Martínez M, Gomez JA. Evidence of rotavirus intragenic recombination between two sublineages of the same genotype. J. Gen. Virol. 85, 1713-1716 (2004). (Pubitemid 38807769)
53. Martella V, Bányai K, Lorusso E, et al. Genetic heterogeneity in the VP7 of group C rotaviruses. Virology 367, 358-366 (2007). (Pubitemid 47494529)
54. Matthijnssens J, Ciarlet M, McDonald SM, et al. Uniformity of rotavirus strain nomenclature proposed by the Rotavirus Classification Working Group (RCWG). Arch. Virol. 156(8), 1397-1413 (2011)
55. Nakagomi O, Nakagomi T, Akatani K, Ikegami N. Identification of rotavirus genogroups by RNA-RNA hybridization. Mol. Cell. Probes 3, 251-261 (1989).
56. Nakagomi O, Nakagomi T. Genetic diversity and similarity among mammalian rotaviruses in relation to interspecies transmission of rotavirus. Arch. Virol. 120, 43-55 (1991).
57. Nakagomi O, Nakagomi T. Molecular evidence for naturally occurring single VP7 gene substitution reassortant between human rotaviruses belonging to two different genogroups. Arch. Virol. 119, 67-81 (1991).
58. Nakagomi O, Ohshima A, Aboudy Y, et al. Molecular identification by RNA-RNA hybridization of a human rotavirus that is closely related to rotaviruses of feline and canine origin. J. Clin. Microbiol. 28, 1198-1203 (1990). (Pubitemid 20194404)
59. Nakagomi T, Nakagomi O. RNA-RNA hybridization identifies a human rotavirus that is genetically related to feline rotavirus. J. Virol. 63, 1431-1434 (1989). (Pubitemid 19061388)
60. Ward RL, Nakagomi O, Knowlton DR, et al. Evidence for natural reassortants of human rotaviruses belonging to different genogroups. J. Virol. 64, 3219-3225 (1990). (Pubitemid 20219525)
61. Adah MI, Nagashima S, Wakuda M, Taniguchi K. Close relationship between G8-serotype bovine and human rotaviruses isolated in Nigeria. J. Clin. Microbiol. 41, 3945-3950 (2003). (Pubitemid 36994749)
62. Palombo EA, Bugg HC, Masendycz PJ, Coulson BS, Barnes GL, Bishop RF. Multiple-gene rotavirus reassortants responsible for an outbreak of gastroenteritis in central and northern Australia. J. Gen. Virol. 77, 1223-1227 (1996). (Pubitemid 26185503)
63. Gerna G, Sarasini A, Parea M. Isolation and characterization of two distinct human rotavirus strains with G6 specificity. J. Clin. Microbiol. 30, 9-16 (1992).
64. Matthijnssens J, Ciarlet M, Rahman M, et al. Recommendations for the classification of group A rotaviruses using all 11 genomic RNA segments. Arch. Virol. 153, 1621-1629 (2008).
65. Heiman EM, McDonald SM, Barro M, Taraporewala ZF, Bar-Magen T, Patton JT. Group A human rotavirus genomics: evidence that gene constellations are influenced by viral protein interactions. J. Virol. 82, 11106-11116 (2008).
66. Chen Y, Wen Y, Liu X, et al. Full genomic analysis of human rotavirus strain TB-Chen isolated in China. Virology 375, 361-373 (2008).
67. Khamrin P, Maneekarn N, Peerakome S, et al. Molecular characterization of VP4, VP6, VP7, NSP4, and NSP5/6 genes identifies an unusual G3P[10] human rotavirus strain. J. Med. Virol. 81, 176-182 (2009).
68. Khamrin P, Maneekarn N, Peerakome S, et al. Molecular characterization of rare G3P[9] rotavirus strains isolated from children hospitalized with acute gastroenteritis. J. Med. Virol. 79, 843-851 (2007). (Pubitemid 46709381)
69. Khamrin P, Maneekarn N, Peerakome S, Yagyu F, Okitsu S, Ushijima H. Molecular characterization of a rare G3P[3] human rotavirus reassortant strain reveals evidence for multiple human-animal interspecies transmissions. J. Med. Virol. 78, 986-994 (2006). (Pubitemid 43856709)
70. De Grazia S, Martella V, Giammanco GM, et al. Canine-origin G3P[3] rotavirus strain in child with acute gastroenteritis. Emerg. Infect. Dis. 13, 1091-1103 (2007).
71. De Grazia S, Giammanco GM, Martella V, et al. Rare AU-1-like G3P[9] human rotaviruses with a Kun-like NSP4 gene detected in children with diarrhea in Italy. J. Clin. Microbiol. 46, 357-360 (2008).
72. Medici MC, Abelli LA, Martella V, et al. Characterization of inter-genogroup reassortant rotavirus strains detected in hospitalized children in Italy. J. Med. Virol. 79, 1406-1412 (2007). (Pubitemid 47106280)
73. Iturriza-Gomara M, Anderton E, Kang G, et al. Evidence for genetic linkage between the gene segments encoding NSP4 and VP6 proteins in common and reassortant human rotavirus strains. J. Clin. Microbiol. 41, 3566-3573 (2003). (Pubitemid 36994683)
74. Tatte VS, Rawal KN, Chitambar SD. Sequence and phylogenetic analysis of the VP6 and NSP4 genes of human rotavirus strains: evidence of discordance in their genetic linkage. Infect. Genet. Evol. 10, 940-949 (2010).
75. Ciarlet M, Liprandi F, Conner ME, Estes MK. Species specificity and interspecies relatedness of NSP4 genetic groups by comparative NSP4 sequence analyses of animal rotaviruses. Arch. Virol. 145, 371-383 (2000). (Pubitemid 30121255)
76. Iturriza Gomara M, Wong C, Blome S, Desselberger U, Gray J. Molecular characterization of VP6 genes of human rotavirus isolates: correlation of genogroups with subgroups and evidence of independent segregation. J. Virol. 76, 6596-6601 (2002). (Pubitemid 34633525)
77. Tang B, Gilbert JM, Matsui SM, Greenberg HB. Comparison of the rotavirus gene 6 from different species by sequence analysis and localization of subgroup-specific epitopes using site-directed mutagenesis. Virology 237, 89-96 (1997). (Pubitemid 27464843)
78. Thongprachum A, Khamrin P, Saekhow P, et al. Analysis of the VP6 gene of human and porcine group A rotavirus strains with unusual subgroup specificities. J. Med. Virol. 81, 183-191 (2009).
79. Horie Y, Masamune O, Nakagomi O. Three major alleles of rotavirus NSP4 proteins identified by sequence analysis. J. Gen. Virol. 78, 2341-2346 (1997). (Pubitemid 27387050)
80. Mori Y, Borgan MA, Ito N, Sugiyama M, Minamoto N. Sequential analysis of nonstructural protein NSP4s derived from Group A avian rotaviruses. Virus Res. 89, 145-151 (2002). (Pubitemid 35284064)
81. Kojima K, Taniguchi K, Kobayashi N. Species-specific and interspecies relatedness of NSP1 sequences in human, porcine, bovine, feline, and equine rotavirus strains. Arch. Virol. 141, 1-12 (1996).
82. Xu L, Tian Y, Tarlow O, Harbour D, McCrae MA. Molecular biology of rotaviruses. IX. Conservation and divergence in genome segment 5. J. Gen. Virol. 75, 3413-3421 (1994).
83. Rao CD, Das M, Ilango P, Lalwani R, Rao BS, Gowda K. Comparative nucleotide and amino acid sequence analysis of the sequence-specific RNA-binding rotavirus nonstructural protein NSP3. Virology 207, 327-333 (1995).
84. Mohan KV, Atreya CD. Nucleotide sequence analysis of rotavirus gene 11 from two tissue culture-adapted ATCC strains, RRV and Wa. Virus Genes 23, 321-329 (2001). (Pubitemid 33131871)
85. Martella V, Banyai K, Ciarlet M, et al. Relationships among porcine and human P[6] rotaviruses: evidence that the different human P[6] lineages have originated from multiple interspecies transmission events. Virology 344, 509-519 (2006). (Pubitemid 43049636)
86. Rao CD, Jagannath MR, Varshney BC, Das M, Reddy BSY. Genomic diversity through gene reassortment and antigenic drift and molecular epidemiology of rotaviruses in India. In:Genomic Diversity and Molecular Epidemiology of Rotaviruses. Kobayashi N (Ed). Research Signpost, Trivandrum, India, 55-74 (2003).
87. Ghosh S, Paul SK, Hossain MA, Alam MM, Ahmed MU, Kobayashi N. Full genomic analyses of two human G2P[4] rotavirus strains detected in 2005: identification of a caprine-like VP3 gene. J. Gen. Virol. 92, 1222-1227 (2011).
88. Matthijnssens J, Rahman M, Van Ranst M. Two out of the 11 genes of an unusual human G6P[6] rotavirus isolate are of bovine origin. J. Gen. Virol. 89, 2630-2635 (2008).
89. Ghosh S, Adachi N, Gatheru Z, et al. Whole-genome analysis reveals the complex evolutionary dynamics of Kenyan G2P[4] human rotavirus strains. J. Gen. Virol. 92, 2201-2208 (2011)
90. Maunula L, Von Bonsdorff CH. Frequent reassortments may explain the genetic heterogeneity of rotaviruses: analysis of Finnish rotavirus strains. J. Virol. 76, 11793-11800 (2002). (Pubitemid 35304280)
91. 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. 9, 238 (2009).
92. Arora R, Chitambar SD. Full genomic analysis of Indian G1P[8] rotavirus strains. Infect. Genet. Evol. 11, 504-511 (2011).
93. Banyai K, Mijatovic-Rustempasic S, Hull JJ, et al. 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. 83, 532-539 (2011).
94. Rahman M, Matthijnssens J, Saiada F, et al. Complete genomic analysis of a Bangladeshi G1P[8] rotavirus strain detected in 2003 reveals a close evolutionary relationship with contemporary human Wa-like strains. Infect. Genet. Evol. 10, 746-754 (2010).
95. 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. 11(6), 1481-1486 (2011)
96. Freeman MM, Kerin T, Hull J, et al. Phylogenetic analysis of novel G12 rotaviruses in the United States: a molecular search for the origin of a new strain. J. Med. Virol. 81, 736-746 (2009).
97. Zeller M, Rahman M, Heylen E, et al. Rotavirus incidence and genotype distribution before and after national rotavirus vaccine introduction in Belgium. Vaccine 28, 7507-7513 (2010).
98. Carvalho-Costa FA, Volotao Ede M, de Assis RM, et al. Laboratory-based rotavirus surveillance during the introduction of a vaccination program, Brazil, 2005-2009. Pediatr. Infect. Dis. J. 30, S35-41 (2011).
99. McDonald SM, Matthijnssens J, McAllen JK, et al. Evolutionary dynamics of human rotaviruses: balancing reassortment with preferred genome constellations. PLoS. Pathog. 5, E1000634 (2009).
100. McDonald SM, Davis K, McAllen JK, Spiro DJ, Patton JT. Intra-genotypic diversity of archival G4P[8] human rotaviruses from Washington, DC. Infect. Genet. Evol. doi: 0.1016/j. meegid.2011.05.023 (2011) (Epub ahead of print).
101. Mijatovic-Rustempasic S, Bányai K, Esona MD, Foytich K, Bowen MD, Gentsch JR. Genome sequence based molecular epidemiology of unusual US rotavirus A G9 strains isolated from Omaha, USA between 1997 and 2000. Infect. Genet. Evol. 11, 522-527 (2011).
102. Potgieter AC, Page NA, Liebenberg J, Wright IM, Landt O, van Dijk AA. Improved strategies for sequence-independent amplification and sequencing of viral double-stranded RNA genomes. J. Gen. Virol. 90, 1423-1432 (2009).
103. Mukherjee A, Ghosh S, Bagchi P, et al. Full genomic analyses of human 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. doi: 10.1111/j.1469-0691.2010.03383.x (2010) (Epub ahead of print).
104. Mukherjee A, Dutta D, Ghosh S, et al. Full genomic analysis of a human group A rotavirus G9P[6] strain from Eastern India provides evidence for porcine-to-human interspecies transmission. Arch. Virol. 154, 733-746 (2009).
105. Mukherjee A, Chattopadhyay S, Bagchi P, et al. Surveillance and molecular characterization of rotavirus strains circulating in Manipur, north-eastern India: increasing prevalence of emerging G12 strains. Infect. Genet. Evol. 10, 311-320 (2010).
106. Varghese V, Ghosh S, Das S, et al. Characterization of VP1, VP2 and VP3 gene segments of a human rotavirus closely related to porcine strains. Virus Genes 32, 241-247 (2006). (Pubitemid 43823152)
107. Varghese V, Das S, Singh NB, et al. Molecular characterization of a human rotavirus reveals porcine characteristics in most of the genes including VP6 and NSP4. Arch. Virol. 149, 155-172 (2004). (Pubitemid 38162105)
108. Than VT, Le VP, Lim I, Kim W. Complete genomic characterization of cell culture adapted human G12P[6] rotaviruses isolated from South Korea. Virus Genes 42(3), 317-322 (2011).
109. Rahman M, Matthijnssens J, Yang X, et al. Evolutionary history and global spread of the emerging g12 human rotaviruses. J. Virol. 81, 2382-2390 (2007).
110. Pietsch C, Liebert UG. Human infection with G12 rotaviruses, Germany. Emerg. Infect. Dis. 15, 1512-1515 (2009).
111. Ghosh S, Alam MM, Ahmed MU Talukdar RI, Paul SK, Kobayashi N. Complete genome constellation of a caprine group A rotavirus strain reveals common evolution with ruminant and human rotavirus strains. J. Gen. Virol. 91, 2367-2373 (2010).
112. Ghosh S, Gatheru Z, Nyangao J, Adachi N, Urushibara N, Kobayashi N. Full genomic analysis of a simian SA11-like G3P[2] rotavirus strain isolated from an asymptomatic infant: identification of novel VP1, VP6 and NSP4 genotypes. Infect. Genet. Evol. 11, 57-63 (2011).
113. Tsugawa T, Hoshino Y. Whole genome sequence and phylogenetic analyses reveal human rotavirus G3P[3] strains Ro1845 and HCR3A are examples of direct virion transmission of canine/feline rotaviruses to humans. Virology 380, 344-353 (2008).
114. Matthijnssens J, De Grazia S, Piessens J, et al. Multiple reassortment and interspecies transmission events contribute to the diversity of feline, canine and feline/canine-like human group A rotavirus strains. Infect. Genet. Evol. 11(6), 1396-1406 (2011).
115. Grant L, Esona M, Gentsch J, et al. Detection of G3P[3] and G3P[9] rotavirus strains in American Indian children with evidence of gene reassortment between human and animal rotaviruses. J. Med.Virol. 83, 1288-1299 (2011).
116. De Grazia S, Giammanco GM, Potgieter CA, et al. Unusual assortment of segments in 2 rare human rotavirus genomes. Emerg. Infect. Dis. 16, 859-862 (2010).
117. Wang YH, Kobayashi N, Nagashima S, et al. Full genomic analysis of a porcine-bovine reassortant G4P[6] rotavirus strain R479 isolated from an infant in China. J. Med. Virol. 82, 1094-1102 (2010).
118. Esona MD, Geyer A, Banyai K, et al. Novel human rotavirus genotype G5P[7] from child with diarrhea, Cameroon. Emerg. Infect. Dis. 15, 83-86 (2009).
119. Matthijnssens J, Potgieter CA, Ciarlet M, et al. 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. 83, 2917-2929 (2009).
120. Banyai K, Martella V, Molnar P, Mihaly I, Van Ranst M, Matthijnssens J. Genetic heterogeneity in human G6P[14] rotavirus strains detected in Hungary suggests independent zoonotic origin. J. Infect. 59, 213-215 (2009).
121. El Sherif M, Esona MD, Wang Y, et al. Detection of the first G6P[14] human rotavirus strain from a child with diarrhea in Egypt. Infect. Genet. Evol. 11(6), 1436-1442 (2011).
122. Banyai K, Papp H, Dandar E, et al. Whole genome sequencing and phylogenetic analysis of a zoonotic human G8P[14] rotavirus strain. Infect. Genet. Evol. 10, 1140-1144 (2010).
123. 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 43(2), 215-223 (2011).
124. Ghosh S, Gatheru Z, Nyangao J, Adachi N, Urushibara N, Kobayashi N. Full genomic analysis of a G8P[1] rotavirus strain isolated from an asymptomatic infant in Kenya provides evidence for an artiodactyl-to-human interspecies transmission event. J. Med. Virol. 83, 367-376 (2011).
125. Banyai K, Esona MD, Mijatovic S, et al. Zoonotic bovine rotavirus strain in a diarrheic child, Nicaragua. J. Clin. Virol. 46, 391-393 (2009).
126. Pietsch C, Petersen L, Patzer L, Liebert UG. Molecular characteristics of German G8P[4] rotavirus strain GER1H-09 suggest that a genotyping and subclassification update is required for G8. J. Clin. Microbiol. 47, 3569-3576 (2009).
127. Matthijnssens J, Rahman M, Yang X, et al. G8 rotavirus strains isolated in the Democratic Republic of Congo belong to the DS-1-like genogroup. J. Clin. Microbiol. 44, 1801-1809 (2006). (Pubitemid 43726272)
128. Esona MD, Geyer A, Page N, et al. Genomic characterization of human rotavirus G8 strains from the African Rotavirus Network: relationship to animal rotaviruses. J. Med. Virol. 81, 937-951 (2009).
129. Esona MD, Banyai K, Foytich K, et al. Genomic characterization of human rotavirus G10 strains from the African Rotavirus Network: relationship to animal rotaviruses. Infect. Genet. Evol. 11, 237-241 (2011).
130. Ramani S, Iturriza-Gomara M, Jana AK, et al. Whole genome characterization of reassortant G10P[11] strain (N155) from a neonate with symptomatic rotavirus infection: identification of genes of human and animal rotavirus origin. J. Clin. Virol. 45, 237-244 (2009).
131. Banyai K, Esona MD, Kerin TK, et al. Molecular characterization of a rare, human-porcine reassortant rotavirus strain, G11P[6], from Ecuador. Arch. Virol. 154, 1823-1829 (2009).
132. Matthijnssens J, Rahman M, Ciarlet M, et al. Reassortment of human rotavirus gene segments into G11 rotavirus strains. Emerg. Infect. Dis. 16, 625-630 (2010).
133. Matthijnssens J, Joelsson DB, Warakomski DJ, et al. Molecular and biological characterization of the 5 human-bovine rotavirus (WC3)-based reassortant strains of the pentavalent rotavirus vaccine, RotaTeq. Virology 403, 111-127 (2010).
134. Rippinger CM, Patton JT, McDonald SM. Complete genome sequence analysis of candidate human rotavirus vaccine strains RV3 and 116E. Virology 405, 201-213 (2010).
135. Victoria JG, Wang C, Jones MS, et al. Viral nucleic acids in live-attenuated vaccines: detection of minority variants and an adventitious virus. J. Virol. 84, 6033-6040 (2010).
136. Baylis SA, Finsterbusch T, Bannert N, Blumel J, Mankertz A. Analysis of porcine circovirus type 1 detected in Rotarix vaccine. Vaccine 29, 690-697 (2011).
137. McClenahan SD, Krause PR, Uhlenhaut C. Molecular and infectivity studies of porcine circovirus in vaccines. Vaccine 29, 4745-4753 (2011).
138. Ahmed MU, Kobayashi N, Wakuda M, et al. Genetic analysis of group B human rotaviruses detected in Bangladesh in 2000 and 2001. J. Med. Virol. 72, 149-155 (2004). (Pubitemid 37484756)
139. Aung TS, Kobayashi N, Nagashima S, et al. Detecton of group B rotavirus in an adult with acute gastroenteritis in Yangon, Myanmar. J. Med. Virol. 81, 1968-1974 (2009).
140. Yamamoto D, Ghosh S, Ganesh B, et al. Analysis of genetic diversity and molecular evolution of human group B rotaviruses based on whole genome segments. J. Gen. Virol. 91, 1772-1781 (2010).
141. Ghosh S, Varghese V, Sinha M, Kobayashi N, Naik TN. Evidence for interstate transmission and increase in prevalence of bovine group B rotavirus strains with a novel VP7 genotype among diarrhoeic calves in Eastern and Northern states of India. Epidemiol. Infect. 135, 1324-1330 (2007). (Pubitemid 351148093)
142. Kuga K, Miyazaki A, Suzuki T, et al. Genetic diversity and classification of the outer capsid glycoprotein VP7 of porcine group B rotaviruses. Arch. Virol. 154, 1785-1795 (2009).
143. Rahman M, Banik S, Faruque AS, et al. Detection and characterization of human group C rotaviruses in Bangladesh. J. Clin. Microbiol. 43, 4460-4465 (2005) (Pubitemid 41298228)
144. Chen Z, Lambden PR, Lau J, Caul EO, Clarke IN. Human group C rotavirus: completion of the genome sequence and gene coding assignments of a non-cultivatable rotavirus. Virus. Res. 83, 179-187 (2002). (Pubitemid 34183385)
145. Matthijnssens J, Martella V, Van Ranst M. Genomic evolution, host-species barrier, reassortment and classification of rotaviruses. Future Virol. 5, 385-390 (2010).
146. RotaC automated genotyping tool for group A rotaviruses http://rotac.regatools.be