Norovirus Recombinant Strains Isolated from Gastroenteritis Outbreaks in Southern Brazil, 2004–2011
Publication Date
April 26, 2016
Journal
PLOS ONE
Authors
Tulio Machado Fumian, Juliana Da Silva Ribeiro De Andrade, José Paulo Gagliardi Leite & Marize Pereira Miagostovich
Volume
11
Issue
4
Pages
e0145391
DOI
https://dx.plos.org/10.1371/journal.pone.0145391
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0145391
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/27116353
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4846083
Europe PMC
http://europepmc.org/abstract/MED/27116353
Web of Science
000374973600003
Scopus
84964777952
Mendeley
http://www.mendeley.com/research/norovirus-recombinant-strains-isolated-gastroenteritis-outbreaks-southern-brazil-20042011
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Mendeley | Further Information

{"title"=>"Norovirus recombinant strains isolated from gastroenteritis outbreaks in southern Brazil, 2004-2011", "type"=>"journal", "authors"=>[{"first_name"=>"Tulio Machado", "last_name"=>"Fumian", "scopus_author_id"=>"14025327100"}, {"first_name"=>"Juliana Da Silva Ribeiro", "last_name"=>"De Andrade", "scopus_author_id"=>"37092796000"}, {"first_name"=>"José Paulo Gagliardi", "last_name"=>"Leite", "scopus_author_id"=>"16190401500"}, {"first_name"=>"Marize Pereira", "last_name"=>"Miagostovich", "scopus_author_id"=>"7003610239"}], "year"=>2016, "source"=>"PLoS ONE", "identifiers"=>{"doi"=>"10.1371/journal.pone.0145391", "sgr"=>"84964777952", "pui"=>"611092690", "scopus"=>"2-s2.0-84964777952", "issn"=>"19326203", "pmid"=>"27116353", "isbn"=>"1932-6203"}, "id"=>"0ef8beca-05f4-3290-8283-e782c0d83eb1", "abstract"=>"Noroviruses are recognized as one of the leading causes of viral acute gastroenteritis, responsible for almost 50% of acute gastroenteritis outbreaks worldwide. The positive single-strand RNA genome of noroviruses presents a high mutation rate and these viruses are constantly evolving by nucleotide mutation and genome recombination. Norovirus recombinant strains have been detected as causing acute gastroenteritis outbreaks in several countries. However, in Brazil, only one report of a norovirus recombinant strain (GII.P7/GII.20) has been described in the northern region so far. For this study, 38 norovirus strains representative of outbreaks, 11 GII.4 and 27 non-GII.4, were randomly selected and amplified at the ORF1/ORF2 junction. Genetic recombination was identified by constructing phylogenetic trees of the polymerase and capsid genes, and further SimPlot and Bootscan analysis of the ORF1/ORF2 overlap. Sequence analysis revealed that 23 out of 27 (85%) non-GII.4 noroviruses were recombinant strains, characterized as: GII.P7/GII.6 (n = 9); GIIP.g/GII.12 (n = 4); GII.P16/GII.3 (n = 4); GII.Pe/GII.17 (n = 2); GII.P7/GII.14 (n = 1); GII.P13/GII.17 (n = 1); GII.P21/GII.3 (n = 1); and GII.P21/GII.13 (n = 1). On the other hand, among the GII.4 variants analyzed (Den Haag_2006b and New Orleans_2009) no recombination was observed. These data revealed the great diversity of norovirus recombinant strains associated with outbreaks, and describe for the first time these recombinant types circulating in Brazil. Our results obtained in southern Brazil corroborate the previous report for the northern region, demonstrating that norovirus recombinant strains are circulating more frequently than we expected. In addition, these results emphasize the relevance of including ORF1/ORF2-based analysis in surveillance studies as well as the importance of characterizing strains from other Brazilian regions to obtain epidemiological data for norovirus recombinant strains circulating in the country.", "link"=>"http://www.mendeley.com/research/norovirus-recombinant-strains-isolated-gastroenteritis-outbreaks-southern-brazil-20042011", "reader_count"=>17, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Researcher"=>2, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>2, "Student > Postgraduate"=>1, "Student > Master"=>4, "Student > Bachelor"=>4}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Researcher"=>2, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>2, "Student > Postgraduate"=>1, "Student > Master"=>4, "Student > Bachelor"=>4}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>7, "Arts and Humanities"=>1, "Immunology and Microbiology"=>3, "Veterinary Science and Veterinary Medicine"=>1}, "reader_count_by_subdiscipline"=>{"Immunology and Microbiology"=>{"Immunology and Microbiology"=>3}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>7}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>2}, "Environmental Science"=>{"Environmental Science"=>1}, "Arts and Humanities"=>{"Arts and Humanities"=>1}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>1}}, "reader_count_by_country"=>{"Italy"=>1}, "group_count"=>1}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/5026462"], "description"=>"<p>NoV recombinant sequences detected in Southern Brazil during the period of 2004–2011, with the partial 3’-ORF1 and 5’-ORF2 of NoV genome.</p>", "links"=>[], "tags"=>["GII", "region", "38 norovirus strains representative", "Norovirus Recombinant Strains", "ORF", "RNA", "gastroenteritis outbreaks", "recombination", "analysis", "GII.P"], "article_id"=>3202192, "categories"=>["Space Science", "Medicine", "Microbiology", "Molecular Biology", "Evolutionary Biology", "Environmental Sciences not elsewhere classified", "Biological Sciences not elsewhere classified", "Cancer", "Science Policy", "Infectious Diseases", "Virology", "Computational Biology"], "users"=>["Tulio Machado Fumian", "Juliana da Silva Ribeiro de Andrade", "José Paulo Gagliardi Leite", "Marize Pereira Miagostovich"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0145391.t001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/NoV_recombinant_sequences_detected_in_Southern_Brazil_during_the_period_of_2004_2011_with_the_partial_3_ORF1_and_5_ORF2_of_NoV_genome_/3202192", "title"=>"NoV recombinant sequences detected in Southern Brazil during the period of 2004–2011, with the partial 3’-ORF1 and 5’-ORF2 of NoV genome.", "pos_in_sequence"=>5, "defined_type"=>3, "published_date"=>"2016-04-26 06:43:28"}
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  • {"files"=>["https://ndownloader.figshare.com/files/5026450"], "description"=>"<p>(a) Phylogenetic tree of 231 bp within the polymerase region (3’ ORF1). (b) Phylogenetic tree of 277 bp within the capsid region (5’ ORF2). References strains of NoV GII.4 variants are named according to GenBank with their respectively accession numbers. Brazilian GII.4 strains are marked with a filled diamond. The scale bar at the bottom of the tree indicates distance. Bootstrap values (2,000 replicates) are shown at the branch nodes and values lower than 60% are not shown.</p>", "links"=>[], "tags"=>["GII", "region", "38 norovirus strains representative", "Norovirus Recombinant Strains", "ORF", "RNA", "gastroenteritis outbreaks", "recombination", "analysis", "GII.P"], "article_id"=>3202180, "categories"=>["Space Science", "Medicine", "Microbiology", "Molecular Biology", "Evolutionary Biology", "Environmental Sciences not elsewhere classified", "Biological Sciences not elsewhere classified", "Cancer", "Science Policy", "Infectious Diseases", "Virology", "Computational Biology"], "users"=>["Tulio Machado Fumian", "Juliana da Silva Ribeiro de Andrade", "José Paulo Gagliardi Leite", "Marize Pereira Miagostovich"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0145391.g001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Phylogenetic_analyses_of_NoV_GII_4_sequences_based_on_the_polymerase_region_ORF1_and_capsid_region_ORF2_/3202180", "title"=>"Phylogenetic analyses of NoV GII.4 sequences based on the polymerase region (ORF1) and capsid region (ORF2).", "pos_in_sequence"=>1, "defined_type"=>1, "published_date"=>"2016-04-26 06:43:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/5026459"], "description"=>"<p>SimPlot was constructed using Simplot version 3.5.1 with a slide window width of 200 bp and a step size of 20 bp. The vertical axis indicates nucleotide identities (%) between the query sequences (Brazilian samples) and the reference strains. NoV parental strains are indicated by the accession numbers and their respectively ORF1-based genotypes (indicated by the letter P) or ORF2-based genotypes.</p>", "links"=>[], "tags"=>["GII", "region", "38 norovirus strains representative", "Norovirus Recombinant Strains", "ORF", "RNA", "gastroenteritis outbreaks", "recombination", "analysis", "GII.P"], "article_id"=>3202189, "categories"=>["Space Science", "Medicine", "Microbiology", "Molecular Biology", "Evolutionary Biology", "Environmental Sciences not elsewhere classified", "Biological Sciences not elsewhere classified", "Cancer", "Science Policy", "Infectious Diseases", "Virology", "Computational Biology"], "users"=>["Tulio Machado Fumian", "Juliana da Silva Ribeiro de Andrade", "José Paulo Gagliardi Leite", "Marize Pereira Miagostovich"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0145391.g004", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Similarity_plots_of_the_NoV_recombinant_types_detected_in_Southern_Brazil_during_the_2004_2011_period_/3202189", "title"=>"Similarity plots of the NoV recombinant types detected in Southern Brazil during the 2004–2011 period.", "pos_in_sequence"=>4, "defined_type"=>1, "published_date"=>"2016-04-26 06:43:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/5026453"], "description"=>"<p>(a) Phylogenetic tree of 231 bp within the polymerase region (3’-ORF1). (b) Phylogenetic tree of 277 bp within the capsid region (5’-ORF2). References strains of NoV genotypes are named according to GenBank with their respectively accession numbers. Brazilian GII.4 strains are marked with a filled diamond. The scale bar at the bottom of the tree indicates distance. Bootstrap values (2000 replicates) are shown at the branch nodes and values lower than 60% are not shown.</p>", "links"=>[], "tags"=>["GII", "region", "38 norovirus strains representative", "Norovirus Recombinant Strains", "ORF", "RNA", "gastroenteritis outbreaks", "recombination", "analysis", "GII.P"], "article_id"=>3202183, "categories"=>["Space Science", "Medicine", "Microbiology", "Molecular Biology", "Evolutionary Biology", "Environmental Sciences not elsewhere classified", "Biological Sciences not elsewhere classified", "Cancer", "Science Policy", "Infectious Diseases", "Virology", "Computational Biology"], "users"=>["Tulio Machado Fumian", "Juliana da Silva Ribeiro de Andrade", "José Paulo Gagliardi Leite", "Marize Pereira Miagostovich"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0145391.g002", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Phylogenetic_analyses_of_NoV_GII_sequences_based_on_the_polymerase_and_capsid_regions_/3202183", "title"=>"Phylogenetic analyses of NoV GII sequences based on the polymerase and capsid regions.", "pos_in_sequence"=>2, "defined_type"=>1, "published_date"=>"2016-04-26 06:43:28"}

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Relative Metric

{"start_date"=>"2016-01-01T00:00:00Z", "end_date"=>"2016-12-31T00:00:00Z", "subject_areas"=>[]}
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