Genome

Norwalk virus Investigation on norovirus outbreaks in California in 2012-2019 Lineage: Viruses[32582]; Riboviria[7831]; Orthornavirae[6385]; Pisuviricota[1796]; Pisoniviricetes[1137]; Picornavirales[760]; Caliciviridae[45]; Norovirus[6]; Norwalk virus[3]

The FDA collaborates with health departments during foodborne outbreaks by performing microbiological analysis of suspected foods and coordinating recalls of implicated products. Whole-genome sequencing (WGS) has the potential to enhance outbreak investigations and surveillance efforts through the analysis of the complete norovirus genome of 7,700 base More...pairs. This project seeks to fill the need for WGS research on norovirus by analyzing the genome sequences of 40 clinical specimens associated with 14 previous outbreaks of norovirus in Orange County, CA through a coordinated, multi-lab approach involving collaborators at the Orange County Public Health Laboratory, FDA Office of Regulatory Affairs, and FDA Center for Food Safety and Applied Nutrition. The sequence information generated with this project will be valuable for future research on the genetic evolution of norovirus, recombinant variants and disease pathogenesis. Less...

Summary Sequence data:  genome assemblies: 911; sequence reads: 1 Statistics:  median total length (Mb): 0.007553  median protein count: 3  median GC%: 49.5 Publications (limited to 20 most recent records) Whole-Genome Sequencing-Based Confirmatory Methods on RT-qPCR Results for the Detection of Foodborne Viruses in Frozen Berries. Yang Z, et al. Food Environ Virol 2024 Jun Next-generation sequencing of human respiratory syncytial virus subgroups A and B genomes. Wang L, et al. J Virol Methods 2022 Jan Detection and Sequencing of Multiple Human Norovirus Genotypes from Imported Frozen Raspberries Linked to Outbreaks in the Province of Quebec, Canada, in 2017. Raymond P, et al. Food Environ Virol 2022 Mar Severe Parechovirus 3 Infections in Young Infants-Kansas and Missouri, 2014. Midgley CM, et al. J Pediatric Infect Dis Soc 2018 May 15 High-Throughput Next-Generation Sequencing of Polioviruses. Montmayeur AM, et al. J Clin Microbiol 2017 Feb Genomic Characterization of Three Melon Necrotic Spot Viruses Detected in Human Stool Specimens. Marine R, et al. Genome Announc 2017 Mar 16 Complete Genome Sequence of Human Norovirus GII.Pe-GII.4 Sydney from the United States. Yang Z, et al. Genome Announc 2017 Apr 13 U(50): A New Metric for Measuring Assembly Output Based on Non-Overlapping, Target-Specific Contigs. Castro CJ, et al. J Comput Biol 2017 Nov Complete Genome Sequences of Mumps and Measles Virus Isolates from Three States in the United States. Magaña LC, et al. Genome Announc 2017 Aug 17 Complete Genome Sequence of Human Norovirus GII.4_2006b, a Variant of Minerva 2006. Yang Z, et al. Genome Announc 2016 Jan 28 Characterization of a Salivirus (Picornaviridae) from a Diarrheal Child in Guatemala. Ng TF, et al. Genome Announc 2016 Feb 18 Genomic Sequence of the First Porcine Rotavirus Group H Strain in the United States. Hull JJ, et al. Genome Announc 2016 Mar 10 Detection and Genomic Characterization of Enterovirus D68 in Respiratory Samples Isolated in the United States in 2016. Ng TF, et al. Genome Announc 2016 Dec 8 More...  Representative (genome information for reference and representative genomes) Reference genomes:   Norovirus GI Type Name RefSeq INSDC Size (Kb) GC% Protein Gene Chr Unknown NC_001959.2 M87661.2 7.65 48.0 3 3   Norovirus GV Type Name RefSeq INSDC Size (Kb) GC% Protein Gene Chr Unknown NC_008311.1 DQ285629.1 7.38 56.7 4 4