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Arana A.,Hospital Universitario Donostia Institute Investigacion Biodonostia | Cilla G.,Hospital Universitario Donostia Institute Investigacion Biodonostia | Cilla G.,Research Center Biomedica En Red Of Enfermedades Respiratorias Ciberes | Montes M.,Hospital Universitario Donostia Institute Investigacion Biodonostia | And 5 more authors.
PLoS ONE | Year: 2014

Background: Noroviruses (NoVs) are genetically diverse, with genogroup II - and within it - genotype 4 (GII.4) being the most prevalent cause of acute gastroenteritis worldwide. The aim of this study was to characterize genogroup II NoV causing acute gastroenteritis in the Basque Country (northern Spain) from 2009-2012. Methods: The presence of NoV RNA was investigated by reverse transcriptase-polymerase chain reaction (RT-PCR) in stool specimens from children younger than 15 years old with community-acquired acute gastroenteritis, and from hospitalized adults or elderly residents of nursing homes with acute gastroenteritis. For genotyping, the open reading frames ORF1 (encoding the polymerase) and ORF2 (encoding the major capsid protein) were partially amplified and sequenced. Recombinant strains were confirmed by PCR of the ORF1/ORF2 junction region. Results: NoV was detected in 16.0% (453/2826) of acute gastroenteritis episodes in children younger than 2 years, 9.9% (139/1407) in children from 2 to 14 years, and 35.8% (122/341) in adults. Of 317 NoVs characterized, 313 were genogroup II and four were genogroup I. The GII.4 variants Den Haag-2006b and New Orleans-2009 predominated in 2009 and 2010-2011, respectively. In 2012, the New Orleans-2009 variant was partially replaced by the Sydney-2012 variant (GII.Pe/GII.4) and New Orleans-2009/Sydney-2012 recombinant strains. The predominant capsid genotype in all age groups was GII.4, which was the only genotype detected in outbreaks. The second most frequent genotype was GII.3 (including the recently described recombination GII.P16/GII.3), which was detected almost exclusively in children. Conclusion: Nine different genotypes of NoV genogroup II were detected; among these, intergenotype recombinant strains represented an important part, highlighting the role of recombination in the evolution of NoVs. Detection of new NoV strains, not only GII.4 strains, shortly after their first detection in other parts of the world shows that many NoV strains can spread rapidly. © 2014 Arana et al.


Pineiro L.,Hospital Universitario Donostia Institute Investigacion Biodonostia | Bernal S.,Hospital Universitario La Paz | Bordes A.,Hospital Universitario Dr Negrin | Palomares J.C.,Hospital Universitario La Paz | And 4 more authors.
Infection | Year: 2014

Purpose : The aim of this study was to determine the presence of the new Swedish Chlamydia trachomatis (C. trachomatis) variant (nvCT) and the distribution of C. trachomatisompA genotypes in three geographically distant regions of Spain.Methods: The genotypes of strains causing 624 episodes of infection (January 2011–September 2012) were studied using a nested PCR that amplifies a fragment of the ompA gene, followed by sequencing. To detect nvCT, a real-time PCR was used that amplifies a fragment of the cryptic plasmid with a 377 base pair deletion, which identifies the nvCT.Results and conclusion: The ompA genotype was identified in 565 (90.5 %) episodes. Eleven genotypes were detected, of which nine were found in all three regions. Only one nvCT strain was detected (0.4 %), despite the predominance of genotype E (41 %). Other frequent genotypes were genotypes D (19 %), F (13 %), G (11 %), and J (7 %). Genotype L2b, causing lymphogranuloma venereum, was detected in men who have sex with men (MSM) in all three regions. Genotypes E and F were more frequent in women and heterosexual men, and genotypes D, G, J and L2b in MSM. In men, the main factor causing differences in the distribution of C. trachomatis was sexual behavior (MSM versus heterosexual men), while the distribution of C. trachomatis genotypes was similar in women and heterosexual men. © 2014, Springer-Verlag Berlin Heidelberg.

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