Full-Genomic Analysis of a Human Norovirus Recombinant GII.12/13 Novel Strain Isolated from South Korea
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{"title"=>"Full-genomic analysis of a human norovirus recombinant GII.12/13 novel strain isolated from south korea", "type"=>"journal", "authors"=>[{"first_name"=>"Yu Jung", "last_name"=>"Won", "scopus_author_id"=>"55934365500"}, {"first_name"=>"Jeong Woong", "last_name"=>"Park", "scopus_author_id"=>"37662028500"}, {"first_name"=>"Sang Ha", "last_name"=>"Han", "scopus_author_id"=>"55967902200"}, {"first_name"=>"Han Gil", "last_name"=>"Cho", "scopus_author_id"=>"37664721700"}, {"first_name"=>"Lae Hyung", "last_name"=>"Kang", "scopus_author_id"=>"55613244300"}, {"first_name"=>"Sung Geun", "last_name"=>"Lee", "scopus_author_id"=>"37031455800"}, {"first_name"=>"Sang Ryeol", "last_name"=>"Ryu", "scopus_author_id"=>"7402110940"}, {"first_name"=>"Soon Young", "last_name"=>"Paik", "scopus_author_id"=>"25959686100"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"84894069236", "pmid"=>"24391985", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "scopus"=>"2-s2.0-84894069236", "issn"=>"19326203", "pui"=>"372376806", "doi"=>"10.1371/journal.pone.0085063"}, "id"=>"068c3ca1-c1bc-3b83-aeec-445ec000ac49", "abstract"=>"Norovirus (NoV) genogroups I and II are frequently recognized as the main causes of acute gastroenteritis and outbreaks of non-bacterial foodborne diseases. Furthermore, variants and recombinant strains of this virus are continuously emerging worldwide. The aim of this study was to identify NoV strains and to investigate and characterize rare genotypes. Stool samples (n = 500) were collected from patients with symptoms of acute gastroenteritis in Korea between December 2004 and November 2007. For analysis of the samples, rapid genotype screening was performed using reverse transcriptase-polymerase chain reaction. Full sequencing, using a newly designed set of 12 primers, revealed GII-12/13 strain. The partial sequence of GII-12/13 strain was compared with published NoV (GII-1 - 14) sequences targeting RdRp and capsid regions using phylogenetic analysis with the SimPlot program, which could evaluate recombination breakpoints. SimPlot analysis was also performed with the strain GII-12/Gifu-96/JPN (AB045603) for the RdRp region and with GII-13/G5175B-83/AUS(DQ379714) for the capsid region. NoV was detected in 19 of the 500 stool samples (3.8%). Genogroup GII-4 was found most frequently (n = 9, 1.8%), followed by GII-3 (n = 4, 0.8%), GII-6 (n = 3, 0.6%), GI-6 (n = 2, 0.4%), and GII-12/13 (n = 1, 0.2%). Importantly, we identified a novel NoV recombinant strain, C9-439 (KF289337), indicating potential risks, which suggested that, recombination occurred in the region between open reading frames 1 and 2 of the GII-12/13 strain and that breakpoints occurred in the polymerase region.", "link"=>"http://www.mendeley.com/research/fullgenomic-analysis-human-norovirus-recombinant-gii1213-novel-strain-isolated-south-korea", "reader_count"=>22, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>1, "Researcher"=>6, "Student > Ph. D. Student"=>4, "Student > Master"=>5, "Other"=>3, "Student > Bachelor"=>3}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>1, "Researcher"=>6, "Student > Ph. D. Student"=>4, "Student > Master"=>5, "Other"=>3, "Student > Bachelor"=>3}, "reader_count_by_subject_area"=>{"Engineering"=>1, "Unspecified"=>1, "Environmental Science"=>3, "Biochemistry, Genetics and Molecular Biology"=>1, "Agricultural and Biological Sciences"=>11, "Medicine and Dentistry"=>3, "Computer Science"=>1, "Immunology and Microbiology"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>3}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>11}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>1}, "Unspecified"=>{"Unspecified"=>1}, "Environmental Science"=>{"Environmental Science"=>3}}, "reader_count_by_country"=>{"Japan"=>1, "Brazil"=>1, "Mexico"=>1}, "group_count"=>0}

Scopus | Further Information

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Figshare

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  • {"files"=>["https://ndownloader.figshare.com/files/1336074"], "description"=>"<p>Phylogenetic analysis of the nucleotide (a) and amino acid (b) sequences of the ORF1/ORF2 region of the GI type strain detected through genotyping with the reference strain isolated worldwide.</p>", "links"=>[], "tags"=>["nucleotide", "amino", "sequences", "gi", "genotyping"], "article_id"=>892200, "categories"=>["Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Yu-Jung Won", "Jeong-Woong Park", "Sang-ha Han", "Han-Gil Cho", "Lae-Hyung Kang", "Sung-Geun Lee", "Sang-Ryeol Ryu", "Soon-Young Paik"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085063.g001", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_analysis_of_the_nucleotide_a_and_amino_acid_b_sequences_of_the_ORF1_ORF2_region_of_the_GI_type_strain_detected_through_genotyping_with_the_reference_strain_isolated_worldwide_/892200", "title"=>"Phylogenetic analysis of the nucleotide (a) and amino acid (b) sequences of the ORF1/ORF2 region of the GI type strain detected through genotyping with the reference strain isolated worldwide.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-31 06:26:20"}
  • {"files"=>["https://ndownloader.figshare.com/files/1336077"], "description"=>"<p>Phylogenetic analysis of the nucleotide (a) and amino acid (b) sequences of the ORF1/ORF2 region of the GII type strain detected through genotyping with the reference strain isolated worldwide.</p>", "links"=>[], "tags"=>["nucleotide", "amino", "sequences", "gii", "genotyping"], "article_id"=>892203, "categories"=>["Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Yu-Jung Won", "Jeong-Woong Park", "Sang-ha Han", "Han-Gil Cho", "Lae-Hyung Kang", "Sung-Geun Lee", "Sang-Ryeol Ryu", "Soon-Young Paik"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085063.g002", "stats"=>{"downloads"=>0, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_analysis_of_the_nucleotide_a_and_amino_acid_b_sequences_of_the_ORF1_ORF2_region_of_the_GII_type_strain_detected_through_genotyping_with_the_reference_strain_isolated_worldwide_/892203", "title"=>"Phylogenetic analysis of the nucleotide (a) and amino acid (b) sequences of the ORF1/ORF2 region of the GII type strain detected through genotyping with the reference strain isolated worldwide.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-31 06:26:20"}
  • {"files"=>["https://ndownloader.figshare.com/files/1336080"], "description"=>"<p>The novel norovirus strain isolated in this study is indicated with ●.</p>", "links"=>[], "tags"=>["nucleotide", "amino", "sequences", "orf1", "hy718-kor"], "article_id"=>892205, "categories"=>["Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Yu-Jung Won", "Jeong-Woong Park", "Sang-ha Han", "Han-Gil Cho", "Lae-Hyung Kang", "Sung-Geun Lee", "Sang-Ryeol Ryu", "Soon-Young Paik"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085063.g003", "stats"=>{"downloads"=>4, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_analysis_of_the_nucleotide_a_and_amino_acid_b_sequences_of_the_partial_ORF1_region_246_bp_of_the_Hy718_KOR_strain_C9_439_sample_and_reference_strain_isolated_worldwide_/892205", "title"=>"Phylogenetic analysis of the nucleotide (a) and amino acid (b) sequences of the partial ORF1 region (246 bp) of the Hy718-KOR strain (C9-439 sample) and reference strain isolated worldwide.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-31 06:26:20"}
  • {"files"=>["https://ndownloader.figshare.com/files/1336082"], "description"=>"<p>The novel norovirus strain isolated in this study is indicated with ●. </p>", "links"=>[], "tags"=>["nucleotide", "amino", "sequences", "orf2", "hy718-kor"], "article_id"=>892207, "categories"=>["Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Yu-Jung Won", "Jeong-Woong Park", "Sang-ha Han", "Han-Gil Cho", "Lae-Hyung Kang", "Sung-Geun Lee", "Sang-Ryeol Ryu", "Soon-Young Paik"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085063.g004", "stats"=>{"downloads"=>0, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_analysis_of_the_nucleotide_a_and_amino_acid_b_sequences_of_the_partial_ORF2_region_483_bp_of_the_Hy718_KOR_strain_C9_439_sample_and_reference_strain_isolated_worldwide_/892207", "title"=>"Phylogenetic analysis of the nucleotide (a) and amino acid (b) sequences of the partial ORF2 region (483 bp) of the Hy718-KOR strain (C9-439 sample) and reference strain isolated worldwide.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-31 06:26:20"}

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Relative Metric

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