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Articles by Shaoting Li
Assessing and optimizing the relationship between nutritional quality and environmental impacts of household food consumption: evidence from the longitudinal data in urban China
DATA AVAILABILITY STATEMENT The data that support the findings of this study are available from the corresponding author upon reasonable request.
Assessing and optimizing the relationship between nutritional quality and environmental impacts of household food consumption: evidence from the longitudinal data in urban China
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Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
Introduction Food animals are considered a major reservoir for human infection with foodborne pathogens such as non-typhoidal Salmonella, Campylobacter species, Escherichia coli, and Listeria spp. (Heredia and García, 2018). Genus Listeria includes different species that are either pathogenic or non-pathogenic. Listeria monocytogenes and L.
GC content-associated sequencing bias caused by library preparation method may affect Salmonella serotype prediction using SeqSero2
Letter to the Editor Shaoting Li, Shaokang Zhang, Xiangyu Deng DOI: 10.1128/AEM.00614-20 ABSTRACT eqSero2 (1) and its predecessor SeqSero (2) predict Salmonella serotypes from whole genome sequencing (WGS) data by targeting genetic determinants of serotype without resorting to surrogate markers, such as MLST.… Copyright © 2020 American Society for Microbiology. Log in using your username and password Username * Password * Forgot your user name or password?
Detection and Serotyping of Salmonella and Escherichia coli in Wheat Flour by a Quasimetagenomic Approach Assisted by Magnetic Capture, Multiple Displacement Amplification and Real-Time Sequencing
Food Microbiology Fereidoun Forghani, Shaoting Li, Shaokang Zhang, David A. Mann, Xiangyu Deng, Henk C. den Bakker, Francisco Diez-Gonzalez DOI: 10.1128/AEM.00097-20 ABSTRACT Food safety is a new area for novel applications of metagenomics analysis, which can not only detect and subtype foodborne pathogens in a single workflow but may also produce additional information with in depth analysis capabilities.
Implications of mobile genetic elements for Salmonella enterica single nucleotide polymorphism subtyping and source tracking investigations
Food Microbiology Shaoting Li, Shaokang Zhang, Leen Baert, Balamurugan Jagadeesan, Catherine Ngom-Bru, Taylor Griswold, Lee S. Katz, Heather A. Carleton, Xiangyu Deng DOI: 10.1128/AEM.01985-19 ABSTRACT Single nucleotide polymorphisms (SNPs) are widely used for whole genome sequencing (WGS)-based subtyping of foodborne pathogens in outbreak and source tracking investigations.
SeqSero2: rapid and improved Salmonella serotype determination using whole genome sequencing data
Food Microbiology Shaokang Zhang, Hendrik C. Den-Bakker, Shaoting Li, Jessica Chen, Blake A. Dinsmore, Charlotte Lane, A.C. Lauer, Patricia I. Fields, Xiangyu Deng DOI: 10.1128/AEM.01746-19 ABSTRACT SeqSero, launched in 2015, is a software tool for Salmonella serotype determination from whole genome sequencing (WGS) data.
Quasimetagenomics-Based and Real-Time-Sequencing-Aided Detection and Subtyping of Salmonella enterica from Food Samples
Quasimetagenomics-Based and Real-Time-Sequencing-Aided Detection and Subtyping of Salmonella enterica from Food Samples
Quasi-metagenomics and realtime sequencing aided detection and subtyping of Salmonella enterica from food samples
Metagenomics analysis of food samples promises isolation-independent detection and subtyping of foodborne bacterial pathogens in a single workflow.
Quasimetagenomics-Based and Real-Time-Sequencing-Aided Detection and Subtyping of Salmonella enterica from Food Samples
Metagenomics analysis of food samples promises isolation-independent detection and subtyping of foodborne bacterial pathogens in a single workflow.
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