Genetic variability and circulation pattern of human metapneumovirus isolated in Italy over five epidemic seasons

New Microbiologica

Volumn 34, Issue 4, 2011, Pages 337-344

  Presti, Alessandra Lo ^a   Cammarota, Roberta ^b   Apostoli, Paola ^c   Cella, Eleonora ^a   Fiorentini, Simona ^c   Babakir Mina, Muhammed ^c   Ciotti, Marco ^d   Ciccozzi, Massimo ^a  

^a ISTITUTO SUPERIORE DI SANITÀ   (Italy)

^b UNIVERSITY OF ROME TOR VERGATA   (Italy)

^c UNIVERSITY OF BRESCIA   (Italy)

^d TOR VERGATA UNIVERSITY HOSPITAL   (Italy)

Author keywords

F gene; Genetic variability; hMPV; Selective pressure

Indexed keywords

VIRUS FUSION PROTEIN;

ARTICLE; CLASSIFICATION; EPIDEMIC; GENETIC VARIABILITY; GENETICS; HUMAN; ITALY; METAPNEUMOVIRUS; MOLECULAR EVOLUTION; PARAMYXOVIRUS INFECTION; PHYLOGENY; SEASON; STATISTICS; VIROLOGY; VIRUS GENE;

EPIDEMICS; EVOLUTION, MOLECULAR; GENES, VIRAL; GENETIC VARIATION; HUMANS; ITALY; METAPNEUMOVIRUS; PARAMYXOVIRIDAE INFECTIONS; PHYLOGENY; SEASONS; VIRAL FUSION PROTEINS;

EID: 82755174206     PISSN: 11217138     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (39)

1. BASTIEN N., WARD D., VAN CAESEELE P., BRANDT K., LEE S.H., MCNABB G., KLISKO B., CHAN E., LI Y. (2003). Human metapneumovirus infection in the Canadian population. J. Clin. Microbiol. 41, 4642-4646. (Pubitemid 37259770)
2. BIACCHESI S., SKIADOPOULOS M.H., YANG L., LAMIRANDE E.W, TRAN K.C., MURPHY B.R., COLLINS P. L., BUCHHOLZ U.J. (2004). Recombinant human metapneumovirus lacking the small hydrophobic SH and/or attachment G glycoprotein: deletion of G yields a promising vaccine candidate. J. Virol. 78, 12877-12887. (Pubitemid 39507796)
3. BIACCHESI S., SKIADOPOULOS M.H., BOIVIN G., HANSON C.T. MURPHY B.R., COLLINS P.L., BUCHHOLZ U.J. (2003).Genetic diversity between human metapneumovirus subgroups. Virology. 315, 1-9. (Pubitemid 37340045)
4. BOIVIN G., DE SERRES G., CÔTÉ S., GILCA R., ABED Y., ROCHETTE L., BERGERON M.G., DÉRY P. (2003). Human metapneumovirus infections in hospitalized children. Emerg. Infect. Dis. 9, 634-640. (Pubitemid 36676356)
5. BOIVIN G., ABED Y., PELLETIER G., RUEL L., MOISAN D., CÔTÉ S., PERET T.C., ERDMAN D.D., ANDERSON L.J. (2002). Virological Features and Clinical Manifestations Associated with Human Metapneumovirus: A New Paramyxovirus Responsible for Acute Respiratory-Tract Infections in All Age Groups. J. Infect. Dis. 186, 1330-1334. (Pubitemid 35193012)
6. CARACCIOLO S., MININI C., COLOMBRITA D., ROSSI D., MIGLIETTI N., VETTORE E., CARUSO A., FIORENTINI S. (2008). Human metapneumovirus infection in young children hospitalized with acute respiratory tract disease: virologic and clinical features. Pediatr. Infect. Dis. J. 27, 406-412.
7. DE GRAAF M., OSTERHAUS A.D.M.E., FOUCHIER R.A.M., HOLMES E.C. (2008). Evolutionary dynamics of human and avian metapneumoviruses. J. Gen. Virol. 89, 2933-2942.
8. FALSEY A.R., ERDMAN D., ANDERSON L.J., WALSH E.E. (2003). Human metapneumovirus infections in young and elderly adults. J. Infect. Dis. 187, 785-790. (Pubitemid 36286939)
9. GOVINDARAJAN D., SAMAL S.K. (2005). Analysis of the complete genome sequence of avian metapneumovirus subgroup C indicates that it possesses the longest genome among metapneumoviruses. Virus. Genes. 30, 331-333. (Pubitemid 40584808)
10. GOVINDARAJAN D., YUNUS A.S., SAMAL S.K. (2004). Complete sequence of the G glycoprotein gene of avian metapneumovirus subgroup C and identification of a divergent domain in the predicted protein. J. Gen. Virol. 85, 3671-3675. (Pubitemid 39591874)
11. HALL T.A. (1999). Bioedit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98 NT. Nucl. Acids. Symp. Ser. 41, 95-98.
12. HERFST S., MAS V., VER L.S., WIERDA R.J., OSTERHAUS A.D., FOUCHIER R.A., MELERO J.A. (2008). Low pH induced membrane fusion mediated by human metapneumoviruses F protein is a rare, strain dependent phenomenon. J. Virol. 82, 8891-8895.
13. HERFST S., DE GRAAF M., SCHRAUWEN E.J., ULBRANDT N.D., BARNES A.S., SENTHIL K., OSTERHAUS A.D., FOUCHIER R.A., VAN DEN HOOGEN B.G. (2007). Immunization of Syrian golden hamsters with F subunit vaccine of human metapneumovirus induces protection against challenge with homologous or heterologous strains. J. Gen. Virol. 88, 2702-2709. (Pubitemid 47555023)
14. HUCK B., SCHARF G., NEUMANN-HEIFELIN D., PUPPE W., WEIGL J., FALCONE V. (2006). Novel human metapneumovirus sublineage. Emerg. Infect. Dis. 12, 147-150. (Pubitemid 43143553)
15. KASHIWA H, SHIMOZONO H, TAKAO S. (2004). Clinical pictures of children with human metapneumovirus infection: comparison with respiratory syncytial virus infection. Jpn. J. Infect. Dis. 57, 80-82. (Pubitemid 38679060)
16. KOSAKOVSKY POND S.L., FROST S.D.W. (2005). Not so different after all: a comparison of methods for detecting amino acid sites under selection. Mol. Biol. Evol. 22, 1208-1222. (Pubitemid 40577758)
17. LAMB R.A., PATERSON R.G., JARDETZKY T.S. (2006). Paramyxovirus membrane fusion: lessons from the F and HN atomic structures. Virology. 344, 30-37. (Pubitemid 41814447)
18. NIELSEN R., YANG Z. (1998). Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene. Genetics. 148, 929-936. (Pubitemid 28169008)
19. NAYLOR C.J., BROWN P.A., EDWORTHY N., LING R., JONES R.C., SAVAGE C.E., EASTON A.J. (2004). Development of a reverse-genetics system for Avian pneumovirus demonstrates that the small hydrophobic (SH) and attachment (G) genes are not essential for virus viability. J. Gen. Virol. 85, 3219-3227. (Pubitemid 39445439)
20. PELLETIER G., DÉRY P., ABED Y., BOIVIN G. (2002). Respiratory tract reinfections by the new human Metapneumovirus in an immunocompromised child. Emerg. Infect. Dis. 9, 976-978. (Pubitemid 35000819)
21. POND S.L., FROST S.D. (2005). Datamonkey: rapid detection of selective pressure on individual sites of codon alignments. Bioinformatics. 21, 2531-2533. (Pubitemid 40731616)
22. POND S.K., MUSE S.V. (2005). Site-to-site variation of synonymous substitution rates. Mol. Biol. Evol. 22, 2375-2385. (Pubitemid 41661376)
23. POSADA D., BUCKLEY T.R. (2004). Model selection and model averaging in phylogenetics: Advantages of the AIC and Bayesian approaches over the likelihood ratio tests. Syst. Biol. 53, 793-808. (Pubitemid 39568279)
24. POSADA D., CRANDALL K.A. (1998). MODEL TEST: Testing the model of DNA substitution. Bioinformatics. 14, 817-818. (Pubitemid 28552116)
25. RUSSELL C.J., JARDETZKY T.S., LAMB R.A. (2001). Membrane fusion machines of paramyxoviruses: capture of intermediates of fusion. EMBO J. 20, 4024-4034. (Pubitemid 32751819)
26. SCHLENDER J., ZIMMER G., HERRLER G., CONZELMANN K.K. (2003). Respiratory syncytial virus (RSV) fusion protein subunit F2, not attachment protein G, determines the specificity of RSV infection. J. Virol. 77, 4609-16. (Pubitemid 36402810)
27. SCHOWALTER R.M., SMITH S.E., DUTCH R.E. (2006). Characterization of human metapneumovirus F protein-promoted membrane fusion: critical roles for proteolytic processing and low pH. J. Virol. 80, 10931-10941. (Pubitemid 44706534)
28. SKIADOPOULOS M.H., BIACCHESI S., BUCHHOLZ U.J., AMARO-CARAMBOT E., SURMAN S.R., COLLINS P.L., MURPHY B.R. (2006). Individual contributions of the human metapneumovirus F, G, and SH surface glycoproteins to the induction of neutralizing antibodies and protective immunity. Virology. 345, 492-501. (Pubitemid 43189906)
29. SWOFFORD D.L. (2002). PAUP. Phylogenetic analysis using parsimony (*and other methods). Version 4.0. Sinauer Associates , Sunderland, Massachussets.
30. TAMURA K., DUDLEY J., NEI M., KUMAR S. (2007). MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24, 1596-1599. (Pubitemid 47236692)
31. TAMURA K., NEIM. (1993). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10, 512-526. (Pubitemid 23157236)
32. THOMPSON J.D., GIBSON T.J., PLEWNIAK F., JEANMOUGIN F., HIGGINS D.G. (1994). CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic. Acids. Res. 25, 4876-4882. (Pubitemid 28022245)
33. TOQUIN D., DE BOISSESON C., BEVEN V., SENNE D.A., ETERRADOSSI N. (2003). Subgroup C avian metapneumovirus (MPV) and the recently isolated human MPV exhibit a common organization but have extensive sequence divergence in their putative SH and G genes. J. Gen. Virol. 84, 2169-2178. (Pubitemid 36927248)
34. VAN DEN HOOGEN B.G., VAN DOORNUM G.J.J., FOCKENS J.C., CORNELISSEN J.J., BEYER W.E.P., DE GROOT R., OSTERHAUS ADME, FOUCHIER R.A.M. (2003). Prevalence and clinical symptoms of human metapneumovirus infection in hospitalized patients. J. Infect. Dis. 188, 1571-1577. (Pubitemid 37523944)
35. VAN DEN HOOGEN B.G., DE JONG J.C., GROEN J., KUIKEN T., DE GROOT R., FOUCHIER R.A., OSTERHAUS A.D. (2001). A newly discovered human pneumovirus isolated from young children with respiratory tract disease. Nat. Med. 7, 719-724. (Pubitemid 32588029)
36. VICENTE D., MONTES M., CILLA G., PEREZ-YARZA E.G. AND PEREZ-TRALLERO E. (2006). Differences in clinical severity between genotype A and genotype B human metapneumovirus infection in children; Clin. Infect. Dis. 15, e111-e113.
37. WILLIAMS J.V., CHEN Z., CSEKE G., WRIGHT D.W., KEEFER C.J., TOLLEFSON S.J. HESSELL A., PODSIAD A., SHEPHERD B.E., SANNA P.P., BURTON D.R., CROWE J.E. JR, WILLIAMSON R.A. (2007). A recombinant human monoclonal antibody to human metapneumovirus fusion protein that neutralizes virus in vitro and is effective therapeutically in vivo. J. Virol. 81, 8315-8324. (Pubitemid 47101516)
38. WILLIAMS J.V., HARRIS P.A., TOLLEFSON S.J., HALBURNTRUSH L.L., PINGSTERHAUS J.M., EDWARDS K.M., WRIGHT P.F., CROWE J.E JR. (2004). Human metapneumovirus and lower respiratory tract disease in otherwise healthy infants and children. N. Engl. J. Med. 350, 443-450. (Pubitemid 38133764)
39. YANG Z. (1994). Maximum-Likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J. Mol. Evol. 39, 306-314. (Pubitemid 24283346)