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Human astrovirus gastroenteritis in children, Madagascar, 2004-2005.

Papaventsis DC, Dove W, Cunliffe NA, Nakagomi O, Combe P, Grosjean P, Hart CA - Emerging Infect. Dis. (2008)

Bottom Line: We report data regarding the molecular epidemiology of human astrovirus (HAstV) infections among children in Madagascar.In a 13-month study, 5 HAstV isolates were detected in fecal samples from 237 children (2.1%) by reverse transcription-PCR.Phylogenetic analysis showed the cocirculation of usual and unusual HAstVs.

View Article: PubMed Central - PubMed

Affiliation: University of Liverpool, Liverpool, UK.

ABSTRACT
We report data regarding the molecular epidemiology of human astrovirus (HAstV) infections among children in Madagascar. In a 13-month study, 5 HAstV isolates were detected in fecal samples from 237 children (2.1%) by reverse transcription-PCR. Phylogenetic analysis showed the cocirculation of usual and unusual HAstVs.

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Phylogenetic tree of human astrovirus (HAstV) based on the 289-base region of the open reading frame (ORF) 1a gene (A) and the 413-base region of the ORF2 gene (B). We included 6 novel sequences designated according to isolate code_place/year_GenBank accession no. A) DG6013_Madagascar2004_EF490425, DR0075_Madagascar2005_EF490426, DR0034_Madagascar2004_EF490427, DR0038_Madagascar2004_EF490428, DT1004_Madagascar2004_EF490429; B) DR0038_Madagascar2004_EF519312. We also included 16 sequences of reference astrovirus strains obtained from GenBank, designated according to HAstV genotype_place/year_GenBank accession no.: A) HAstV-1_Oxford1994_L23513, HAstV-2_Atlanta1993_L13745, HAstV-3_Oxford_AF290504, HAstV-4_Oxford2000_AF290505, HAstV-5_Norfolk2000_AF290506, HAstV-6_Oxford2000_AF290507, HAstV-7_Oxford2000_AF290508, HAstV-8_Oxford2000_AF290509; B) HAstV-1_Oxford1994_L23513, HAstV-2_USA1993_ L13745, HAstV-3_Oxford1994_L38505, HAstV-4_Oxford1994_L38506, HAstV-5_USA1994_U15136, HAstV-6_Oxford1994_L38507, HAstV-7_Oxford1994_L38508, HAstV-8_Mexico2000_AF260508. Bootstrap values based on 1,000 generated trees are displayed at the nodes.
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Figure 1: Phylogenetic tree of human astrovirus (HAstV) based on the 289-base region of the open reading frame (ORF) 1a gene (A) and the 413-base region of the ORF2 gene (B). We included 6 novel sequences designated according to isolate code_place/year_GenBank accession no. A) DG6013_Madagascar2004_EF490425, DR0075_Madagascar2005_EF490426, DR0034_Madagascar2004_EF490427, DR0038_Madagascar2004_EF490428, DT1004_Madagascar2004_EF490429; B) DR0038_Madagascar2004_EF519312. We also included 16 sequences of reference astrovirus strains obtained from GenBank, designated according to HAstV genotype_place/year_GenBank accession no.: A) HAstV-1_Oxford1994_L23513, HAstV-2_Atlanta1993_L13745, HAstV-3_Oxford_AF290504, HAstV-4_Oxford2000_AF290505, HAstV-5_Norfolk2000_AF290506, HAstV-6_Oxford2000_AF290507, HAstV-7_Oxford2000_AF290508, HAstV-8_Oxford2000_AF290509; B) HAstV-1_Oxford1994_L23513, HAstV-2_USA1993_ L13745, HAstV-3_Oxford1994_L38505, HAstV-4_Oxford1994_L38506, HAstV-5_USA1994_U15136, HAstV-6_Oxford1994_L38507, HAstV-7_Oxford1994_L38508, HAstV-8_Mexico2000_AF260508. Bootstrap values based on 1,000 generated trees are displayed at the nodes.

Mentions: In total, 5 HAstVs were detected in 237 children (2.1%). HAstVs were detected throughout the year. Two co-infections with G2P[4] rotavirus were confirmed by RT-PCR. No co-infection with norovirus was found (Table). Sequence analysis of the ORF1a region showed that isolates from Madagascar clustered within the genogroup A strains as described by Belliot et al. (9). In particular, 1 strain (DT1004_Madagascar2004_EF490429) grouped with genotype 1, a total of 2 strains (DG6013_Madagascar2004_EF490425 and DR0075_Madagascar2005_EF490426) grouped with genotype 3, and notably, 2 strains (DR0034_Madagascar2004_EF490427 and DR0038_Madagascar2004_EF490428) grouped with the emerging genotype 8. Phylogenetic analysis of the ORF2 region showed that the 1 amplifiable isolate from Madagascar (DR0038_Madagascar2004_EF519312), which was clustered as genotype 8 at the ORF1a region, could now be classified as genotype 2 (Figure).


Human astrovirus gastroenteritis in children, Madagascar, 2004-2005.

Papaventsis DC, Dove W, Cunliffe NA, Nakagomi O, Combe P, Grosjean P, Hart CA - Emerging Infect. Dis. (2008)

Phylogenetic tree of human astrovirus (HAstV) based on the 289-base region of the open reading frame (ORF) 1a gene (A) and the 413-base region of the ORF2 gene (B). We included 6 novel sequences designated according to isolate code_place/year_GenBank accession no. A) DG6013_Madagascar2004_EF490425, DR0075_Madagascar2005_EF490426, DR0034_Madagascar2004_EF490427, DR0038_Madagascar2004_EF490428, DT1004_Madagascar2004_EF490429; B) DR0038_Madagascar2004_EF519312. We also included 16 sequences of reference astrovirus strains obtained from GenBank, designated according to HAstV genotype_place/year_GenBank accession no.: A) HAstV-1_Oxford1994_L23513, HAstV-2_Atlanta1993_L13745, HAstV-3_Oxford_AF290504, HAstV-4_Oxford2000_AF290505, HAstV-5_Norfolk2000_AF290506, HAstV-6_Oxford2000_AF290507, HAstV-7_Oxford2000_AF290508, HAstV-8_Oxford2000_AF290509; B) HAstV-1_Oxford1994_L23513, HAstV-2_USA1993_ L13745, HAstV-3_Oxford1994_L38505, HAstV-4_Oxford1994_L38506, HAstV-5_USA1994_U15136, HAstV-6_Oxford1994_L38507, HAstV-7_Oxford1994_L38508, HAstV-8_Mexico2000_AF260508. Bootstrap values based on 1,000 generated trees are displayed at the nodes.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2600253&req=5

Figure 1: Phylogenetic tree of human astrovirus (HAstV) based on the 289-base region of the open reading frame (ORF) 1a gene (A) and the 413-base region of the ORF2 gene (B). We included 6 novel sequences designated according to isolate code_place/year_GenBank accession no. A) DG6013_Madagascar2004_EF490425, DR0075_Madagascar2005_EF490426, DR0034_Madagascar2004_EF490427, DR0038_Madagascar2004_EF490428, DT1004_Madagascar2004_EF490429; B) DR0038_Madagascar2004_EF519312. We also included 16 sequences of reference astrovirus strains obtained from GenBank, designated according to HAstV genotype_place/year_GenBank accession no.: A) HAstV-1_Oxford1994_L23513, HAstV-2_Atlanta1993_L13745, HAstV-3_Oxford_AF290504, HAstV-4_Oxford2000_AF290505, HAstV-5_Norfolk2000_AF290506, HAstV-6_Oxford2000_AF290507, HAstV-7_Oxford2000_AF290508, HAstV-8_Oxford2000_AF290509; B) HAstV-1_Oxford1994_L23513, HAstV-2_USA1993_ L13745, HAstV-3_Oxford1994_L38505, HAstV-4_Oxford1994_L38506, HAstV-5_USA1994_U15136, HAstV-6_Oxford1994_L38507, HAstV-7_Oxford1994_L38508, HAstV-8_Mexico2000_AF260508. Bootstrap values based on 1,000 generated trees are displayed at the nodes.
Mentions: In total, 5 HAstVs were detected in 237 children (2.1%). HAstVs were detected throughout the year. Two co-infections with G2P[4] rotavirus were confirmed by RT-PCR. No co-infection with norovirus was found (Table). Sequence analysis of the ORF1a region showed that isolates from Madagascar clustered within the genogroup A strains as described by Belliot et al. (9). In particular, 1 strain (DT1004_Madagascar2004_EF490429) grouped with genotype 1, a total of 2 strains (DG6013_Madagascar2004_EF490425 and DR0075_Madagascar2005_EF490426) grouped with genotype 3, and notably, 2 strains (DR0034_Madagascar2004_EF490427 and DR0038_Madagascar2004_EF490428) grouped with the emerging genotype 8. Phylogenetic analysis of the ORF2 region showed that the 1 amplifiable isolate from Madagascar (DR0038_Madagascar2004_EF519312), which was clustered as genotype 8 at the ORF1a region, could now be classified as genotype 2 (Figure).

Bottom Line: We report data regarding the molecular epidemiology of human astrovirus (HAstV) infections among children in Madagascar.In a 13-month study, 5 HAstV isolates were detected in fecal samples from 237 children (2.1%) by reverse transcription-PCR.Phylogenetic analysis showed the cocirculation of usual and unusual HAstVs.

View Article: PubMed Central - PubMed

Affiliation: University of Liverpool, Liverpool, UK.

ABSTRACT
We report data regarding the molecular epidemiology of human astrovirus (HAstV) infections among children in Madagascar. In a 13-month study, 5 HAstV isolates were detected in fecal samples from 237 children (2.1%) by reverse transcription-PCR. Phylogenetic analysis showed the cocirculation of usual and unusual HAstVs.

Show MeSH
Related in: MedlinePlus