Genotyping of clinically relevant human adenoviruses by array-in-well hybridization assay

M. Ylihärsilä (Corresponding Author), E. Harju, R. Arppe, Liisa Hattara, J. Hölsä, Petri Saviranta, T. Soukka, M. Waris

Research output: Contribution to journalArticleScientificpeer-review

25 Citations (Scopus)

Abstract

A robust oligonucleotide array-in-well hybridization assay using novel up-converting phosphor reporter technology was applied for genotyping clinically relevant human adenovirus types. A total of 231 adenovirus-positive respiratory, ocular swab, stool and other specimens from 219 patients collected between April 2010 and April 2011 were included in the study. After a real-time PCR amplification targeting the adenovirus hexon gene, the array-in-well assay identified the presence of B03 (n = 122; 57.5% of patients), E04 (29; 13.7%), C02 (21; 9.9%), D37 (14; 6.6%), C01 (12; 5.7%), C05 (5; 2.4%), D19 (4; 1.9%), C06 (2; 0.9%), D08 (1; 0.5%), A31 (1; 0.5%) and F41 (1; 0.5%) genotypes among the clinical sample panel. The typing result was obtained for all specimens that could be amplified (n = 223; 97%), and specificity of the typing was confirmed by sequencing specimens representing each of the different genotypes. No hybridization signal was obtained in adenovirus-negative specimens or specimens with other viruses (n = 30). The array-in-well hybridization assay has great potential as a rapid and multiplex platform for the typing of clinically relevant human adenovirus genotypes in different specimen types.
Original languageEnglish
Pages (from-to)551-557
Number of pages7
JournalClinical Microbiology and Infection
Volume19
Issue number6
DOIs
Publication statusPublished - 2013
MoE publication typeA1 Journal article-refereed

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Human Adenoviruses
Adenoviridae
Genotype
Oligonucleotide Array Sequence Analysis
Real-Time Polymerase Chain Reaction
Viruses
Technology
Genes

Keywords

  • Adenovirus
  • genotype
  • oligonucleotide array-in-well
  • real-time PCR
  • up-converting phosphor

Cite this

Ylihärsilä, M. ; Harju, E. ; Arppe, R. ; Hattara, Liisa ; Hölsä, J. ; Saviranta, Petri ; Soukka, T. ; Waris, M. / Genotyping of clinically relevant human adenoviruses by array-in-well hybridization assay. In: Clinical Microbiology and Infection. 2013 ; Vol. 19, No. 6. pp. 551-557.
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Genotyping of clinically relevant human adenoviruses by array-in-well hybridization assay. / Ylihärsilä, M. (Corresponding Author); Harju, E.; Arppe, R.; Hattara, Liisa; Hölsä, J.; Saviranta, Petri; Soukka, T.; Waris, M.

In: Clinical Microbiology and Infection, Vol. 19, No. 6, 2013, p. 551-557.

Research output: Contribution to journalArticleScientificpeer-review

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AB - A robust oligonucleotide array-in-well hybridization assay using novel up-converting phosphor reporter technology was applied for genotyping clinically relevant human adenovirus types. A total of 231 adenovirus-positive respiratory, ocular swab, stool and other specimens from 219 patients collected between April 2010 and April 2011 were included in the study. After a real-time PCR amplification targeting the adenovirus hexon gene, the array-in-well assay identified the presence of B03 (n = 122; 57.5% of patients), E04 (29; 13.7%), C02 (21; 9.9%), D37 (14; 6.6%), C01 (12; 5.7%), C05 (5; 2.4%), D19 (4; 1.9%), C06 (2; 0.9%), D08 (1; 0.5%), A31 (1; 0.5%) and F41 (1; 0.5%) genotypes among the clinical sample panel. The typing result was obtained for all specimens that could be amplified (n = 223; 97%), and specificity of the typing was confirmed by sequencing specimens representing each of the different genotypes. No hybridization signal was obtained in adenovirus-negative specimens or specimens with other viruses (n = 30). The array-in-well hybridization assay has great potential as a rapid and multiplex platform for the typing of clinically relevant human adenovirus genotypes in different specimen types.

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