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Volume 20, Number 7—July 2014
Dispatch

New Viruses in Idiopathic Human Diarrhea Cases, the Netherlands

Saskia L. SmitsComments to Author , Claudia M.E. Schapendonk, Janko van Beek, Harry Vennema, Anita C. Schürch, Debby Schipper, Rogier Bodewes, Bart L. Haagmans, Albert D. M. E. Osterhaus, and Marion P. Koopmans
Author affiliations: Viroclinics Biosciences, Rotterdam, the Netherlands (S.L. Smits, A.D.M.E. Osterhaus); Erasmus Medical Center, Rotterdam (S.L. Smits, C.M.E. Schapendonk, J. van Beek, A.C. Schürch, D. Schipper, R. Bodewes, B.L. Haagmans, A.D.M.E. Osterhaus, M.P. Koopmans); National Institute for Public Health and the Environment, Bilthoven, the Netherlands (J. van Beek, H. Vennema, M.P. Koopmans)

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Table

Detection of mammalian viral sequences in 27 patients with diarrhea by using viral metagenomics, the Netherlands, 2005–2009*

Patient no. Age, y Diarrhea type or source Year of sampling No. trimmed reads No. trimmed viral reads Virus species (no. reads; % nucleotide identity)
VS6600008 7 Sporadic 2008 7,851 271 Human picobirnavirus (221; NA)
VS6600009 25 Sporadic 2008 8,079 10 Bufavirus 1 (7; 67–94)
VS6600010 87 Sporadic 2008 3,237 1 NA
VS6600011 66 Sporadic 2008 3,866 6 NA
VS6600013 48 Sporadic 2008 2,849 19 NA
VS6600014 40 Sporadic 2008 8,079 143 Aichivirus (139; 98)
Human herpesvirus 4 (1; 91)
Anellovirus (3; 61–85)
VS6600015 84 Sporadic 2008 11,197 9 Anellovirus (6; 81–97)
VS6600016 37 Sporadic 2008 7,333 1 NA
VS6600017 62 Sporadic 2008 546 0 NA
VS6600018 <1 Sporadic 2008 3,936 4 NA
VS6600019 30 Sporadic 2008 9,590 18 NA
VS6600020 57 Sporadic 2009 10,389 37 Porcine picobirnavirus (6; 57–80)
VS6600021 52 Sporadic 2009 4,587 0 NA
VS6600022 27 OB2005111 2005 4,877 113 Fur seal–associated circular DNA virus (98; NA);
VS6600023 47 OB2005111 2005 7,423 117 Human picobirnavirus (91; 82–87)
VS6600024 47 OB2005115 2005 6,852 338 NA
VS6600025 6 OB2005115 2005 8,949 34 Human picobirnavirus (23; 75–84)
VS6600026 12 OB2006097 2006 6,879 52 Otarine picobirnavirus (42; 70–88)
VS6600027 13 OB2006097 2006 9,481 32 NA
VS6600028 52 OB2008169 2008 5,222 74 NA
VS6600029 32 OB2008169 2008 1,568 4 Human picobirnavirus (3; 86)
VS6600030 26 OB2008190 2008 7,377 57 NA
VS6600031 10 OB2008190 2008 4,541 14 NA
VS6600032 90 OB2008217 2008 4,185 13 Fur seal–associated circular DNA virus (4; NA)
VS6600033 97 OB2008217 2008 3,299 11 NA
VS6600034 89 OB2009024 2009 14,797 168 Human picobirnavirus (115;68%–77%)
VS6600035 91 OB2009024 2009 2,256 8 Human picobirnavirus (3; 70%)

*Classification of sequences was based on taxonomic origin of the best-hit sequence and was performed by using MEGAN version 4.40.4 (http://ab.inf.uni-tuebingen.de/software/megan/) with E cutoff values of 0.001 and 10–10 for BLASTn and BLASTx searches (http://blast.ncbi.nlm.nih.gov/Blast.cgi), respectively (5,6). NA, not applicable; OB, outbreak

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References
  1. Fauci  AS, Morens  DM. The perpetual challenge of infectious diseases. N Engl J Med. 2012;366:454–61 . DOIPubMedGoogle Scholar
  2. Glass  RI, Bresee  J, Jiang  B, Gentsch  J, Ando  T, Fankhauser  R, Gastroenteritis viruses: an overview. Novartis Found Symp. 2001;238:5–19, discussion 19–25. DOIPubMedGoogle Scholar
  3. Svraka  S, Duizer  E, Vennema  H, de Bruin  E, van der Veer  B, Dorresteijn  B, Etiological role of viruses in outbreaks of acute gastroenteritis in The Netherlands from 1994 through 2005. J Clin Microbiol. 2007;45:1389–94 . DOIPubMedGoogle Scholar
  4. Friesema  IH, De Boer  RF, Duizer  E, Kortbeek  LM, Notermans  DW, Smeulders  A, Aetiology of acute gastroenteritis in adults requiring hospitalization in The Netherlands. Epidemiol Infect. 2012;140:1780–6. DOIPubMedGoogle Scholar
  5. Bodewes  R, van der Giessen  J, Haagmans  BL, Osterhaus  AD, Smits  SL. Identification of multiple novel viruses, including a parvovirus and a hepevirus, in feces of red foxes. J Virol. 2013;87:7758–64. DOIPubMedGoogle Scholar
  6. Reuter  G, Boros  A, Pankovics  P. Kobuviruses: a comprehensive review. Rev Med Virol. 2011;21:32–41. DOIPubMedGoogle Scholar
  7. Phan  TG, Vo  NP, Bonkoungou  IJ, Kapoor  A, Barro  N, O’Ryan  M, Acute diarrhea in West African children: diverse enteric viruses and a novel parvovirus genus. J Virol. 2012;86:11024–30 . DOIPubMedGoogle Scholar
  8. Ganesh  B, Banyai  K, Martella  V, Jakab  F, Masachessi  G, Kobayashi  N. Picobirnavirus infections: viral persistence and zoonotic potential. Rev Med Virol. 2012;22:245–56. DOIPubMedGoogle Scholar
  9. Giordano  MO, Martinez  LC, Rinaldi  D, Guinard  S, Naretto  E, Casero  R, Detection of picobirnavirus in HIV-infected patients with diarrhea in Argentina. J Acquir Immune Defic Syndr Hum Retrovirol. 1998;18:380–3. DOIPubMedGoogle Scholar
  10. Hoek  RA, Paats  MS, Pas  SD, Bakker  M, Hoogsteden  HC, Boucher  CA, Incidence of viral respiratory pathogens causing exacerbations in adult cystic fibrosis patients. Scand J Infect Dis. 2013;45:65–9. DOIPubMedGoogle Scholar
  11. Delwart  E, Li  L. Rapidly expanding genetic diversity and host range of the Circoviridae viral family and other Rep encoding small circular ssDNA genomes. Virus Res. 2012;164:114–21. DOIPubMedGoogle Scholar
  12. Sikorski  A, Dayaram  A, Varsani  A. Identification of a novel circular DNA virus in New Zealand fur seal (Arctocephalus forsteri) fecal matter. Genome Announc. 2013;1:e00558–13.
  13. Bodewes  R, van de Bildt  MW, Schapendonk  CM, van Leeuwen  M, van Boheemen  S, de Jong  AA, Identification and characterization of a novel adenovirus in the cloacal bursa of gulls. Virology. 2013;440:84–8. DOIPubMedGoogle Scholar
  14. Jartti  T, Hedman  K, Jartti  L, Ruuskanen  O, Allander  T, Soderlund-Venermo  M. Human bocavirus: the first 5 years. Rev Med Virol. 2012;22:46–64. DOIPubMedGoogle Scholar
  15. Okamoto  H. History of discoveries and pathogenicity of TT viruses. Curr Top Microbiol Immunol. 2009;331:1–20. DOIPubMedGoogle Scholar

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