相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。GalaxyTrakr: a distributed analysis tool for public health whole genome sequence data accessible to non-bioinformaticians
Jayanthi Gangiredla et al.
BMC GENOMICS (2021)
Microbiomes of commercially-available pine nuts and sesame seeds
Megan Fay et al.
PLOS ONE (2021)
AMRFinderPlus and the Reference Gene Catalog facilitate examination of the genomic links among antimicrobial resistance, stress response, and virulence
Michael Feldgarden et al.
SCIENTIFIC REPORTS (2021)
Adaptive Response of Listeria monocytogenes to the Stress Factors in the Food Processing Environment
Natalia Wiktorczyk-Kapischke et al.
FRONTIERS IN MICROBIOLOGY (2021)
Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises
Ruth E. Timme et al.
SCIENTIFIC DATA (2020)
Validating the AMRFinder Tool and Resistance Gene Database by Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of Isolates
Michael Feldgarden et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2019)
Zoonotic Source Attribution of Salmonella enterica Serotype Typhimurium Using Genomic Surveillance Data, United States
Shaokang Zhang et al.
EMERGING INFECTIOUS DISEASES (2019)
GenBank
Dennis A. Benson et al.
NUCLEIC ACIDS RESEARCH (2018)
Genomics of foodborne pathogens for microbial food safety
Marc W. Allard et al.
CURRENT OPINION IN BIOTECHNOLOGY (2018)
Shifts in spinach microbial communities after chlorine washing and storage at compliant and abusive temperatures
Ganyu Gu et al.
FOOD MICROBIOLOGY (2018)
Comparative analysis of core genome MLST and SNP typing within a European Salmonella serovar Enteritidis outbreak
Madison E. Pearce et al.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY (2018)
Interpreting Whole-Genome Sequence Analyses of Foodborne Bacteria for Regulatory Applications and Outbreak Investigations
Arthur W. Pightling et al.
FRONTIERS IN MICROBIOLOGY (2018)
SKESA: strategic k-mer extension for scrupulous assemblies
Alexandre Souvorov et al.
GENOME BIOLOGY (2018)
Database Resources of the National Center for Biotechnology
Richa Agarwala et al.
NUCLEIC ACIDS RESEARCH (2017)
Utility of Combining Whole Genome Sequencing with Traditional Investigational Methods To Solve Foodborne Outbreaks of Salmonella Infections Associated with Chicken: A New Tool for Tackling This Challenging Food Vehicle
Samuel J. Crowe et al.
JOURNAL OF FOOD PROTECTION (2017)
An Assessment of Different Genomic Approaches for Inferring Phylogeny of Listeria monocytogenes
Clementine Henri et al.
FRONTIERS IN MICROBIOLOGY (2017)
A Comparative Analysis of the Lyve-SET Phylogenomics Pipeline for Genomic Epidemiology of Foodborne Pathogens
Lee S. Katz et al.
FRONTIERS IN MICROBIOLOGY (2017)
Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance
Ruth E. Timme et al.
PEERJ (2017)
2017 Infectious Diseases Society of America Clinical Practice Guidelines for the Diagnosis and Management of Infectious Diarrhea
Andi L. Shane et al.
CLINICAL INFECTIOUS DISEASES (2017)
Real-Time Whole-Genome Sequencing for Surveillance of Listeria monocytogenes, France
Alexandra Moura et al.
EMERGING INFECTIOUS DISEASES (2017)
Draft Genome Sequence of Campylobacter jejuni CAM970 and C. coli CAM962, Associated with a Large Outbreak of Foodborne Illness in Fukuoka, Japan, in 2016
Hiroshi Asakura et al.
GENOME ANNOUNCEMENTS (2017)
TreeToReads - a pipeline for simulating raw reads from phylogenies
Emily Jane McTavish et al.
BMC BIOINFORMATICS (2017)
A practical exact maximum compatibility algorithm for reconstruction of recent evolutionary history
Joshua L. Cherry
BMC BIOINFORMATICS (2017)
The Connection between Persistent, Disinfectant-Resistant Listeria monocytogenes Strains from Two Geographically Separate Iberian Pork Processing Plants: Evidence from Comparative Genome Analysis
Sagrario Ortiz et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2016)
Tracing Origins of the Salmonella Bareilly Strain Causing a Food-borne Outbreak in the United States
Maria Hoffmann et al.
JOURNAL OF INFECTIOUS DISEASES (2016)
The International Nucleotide Sequence Database Collaboration
Guy Cochrane et al.
NUCLEIC ACIDS RESEARCH (2016)
An Economic Evaluation of PulseNet A Network for Food borne Disease Surveillance
Robert L. Scharff et al.
AMERICAN JOURNAL OF PREVENTIVE MEDICINE (2016)
Use of Metagenomic Shotgun Sequencing Technology To Detect Foodborne Pathogens within the Microbiome of the Beef Production Chain
Xiang Yang et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2016)
Enrichment dynamics of Listeria monocytogenes and the associated microbiome from naturally contaminated ice cream linked to a listeriosis outbreak
Andrea Ottesen et al.
BMC MICROBIOLOGY (2016)
Implementation of Nationwide Real-time Whole-genome Sequencing to Enhance Listeriosis Outbreak Detection and Investigation
Brendan R. Jackson et al.
CLINICAL INFECTIOUS DISEASES (2016)
Navigating Microbiological Food Safety in the Era of Whole-Genome Sequencing
J. Ronholm et al.
CLINICAL MICROBIOLOGY REVIEWS (2016)
A new perspective on microbial landscapes within food production
Nicholas A. Bokulich et al.
CURRENT OPINION IN BIOTECHNOLOGY (2016)
Reduced susceptibilities to biocides and resistance to antibiotics in food-associated bacteria following exposure to quaternary ammonium compounds
C. Soumet et al.
JOURNAL OF APPLIED MICROBIOLOGY (2016)
Practical Value of Food Pathogen Traceability through Building a Whole-Genome Sequencing Network and Database
Marc W. Allard et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2016)
Support vector machine applied to predict the zoonotic potential of E-coli O157 cattle isolates
Nadejda Lupolova et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)
Genomic Epidemiology: Whole-Genome-Sequencing-Powered Surveillance and Outbreak Investigation of Foodborne Bacterial Pathogens
Xiangyu Deng et al.
ANNUAL REVIEW OF FOOD SCIENCE AND TECHNOLOGY, VOL 7 (2016)
Some Like It Hot: Heat Resistance of Escherichia coli in Food
Hui Li et al.
FRONTIERS IN MICROBIOLOGY (2016)
Resistance to Biocides in Listeria monocytogenes Collected in Meat-Processing Environments
Daniele Conficoni et al.
FRONTIERS IN MICROBIOLOGY (2016)
Outbreak of Multidrug-Resistant Salmonella Infections Linked to Pork - Washington, 2015
Vance M. Kawakami et al.
MMWR-MORBIDITY AND MORTALITY WEEKLY REPORT (2016)
Strain-Level Discrimination of Shiga Toxin-Producing Escherichia coli in Spinach Using Metagenomic Sequencing
Susan R. Leonard et al.
PLOS ONE (2016)
Comparing Characteristics of Sporadic and Outbreak-Associated Foodborne Illnesses, United States, 2004-2011
Eric D. Ebel et al.
EMERGING INFECTIOUS DISEASES (2016)
Application of Metagenomic Sequencing to Food Safety: Detection of Shiga Toxin-Producing Escherichia coli on Fresh Bagged Spinach
Susan R. Leonard et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2015)
Cilantro microbiome before and after nonselective pre-enrichment for Salmonella using 16S rRNA and metagenomic sequencing
Karen G. Jarvis et al.
BMC MICROBIOLOGY (2015)
Patterns of genome evolution that have accompanied host adaptation in Salmonella
Gemma C. Langridge et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)
CFSAN SNP Pipeline: an automated method for constructing SNP matrices from next-generation sequence data
Steve Davis et al.
PEERJ COMPUTER SCIENCE (2015)
Effect of Acid Adaptation and Acid Shock on Thermal Tolerance and Survival of Escherichia coli O157:H7 and O111 in Apple Juice
Jessie Usaga et al.
JOURNAL OF FOOD PROTECTION (2014)
High-Salt Preadaptation of Vibrio parahaemolyticus Enhances Survival in Response to Lethal Environmental Stresses
Sai Siddarth Kalburge et al.
JOURNAL OF FOOD PROTECTION (2014)
Colonization and Internalization of Salmonella enterica in Tomato Plants
Jie Zheng et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2013)
The Poultry-Associated Microbiome: Network Analysis and Farm-to-Fork Characterizations
Brian B. Oakley et al.
PLOS ONE (2013)
Co-Enriching Microflora Associated with Culture Based Methods to Detect Salmonella from Tomato Phyllosphere
Andrea R. Ottesen et al.
PLOS ONE (2013)
High resolution clustering of Salmonella enterica serovar Montevideo strains using a next-generation sequencing approach
Marc W. Allard et al.
BMC GENOMICS (2012)
A framework for human microbiome research
Barbara A. Methe et al.
NATURE (2012)
Structure, function and diversity of the healthy human microbiome
Curtis Huttenhower et al.
NATURE (2012)
The sequence read archive: explosive growth of sequencing data
Yuichi Kodama et al.
NUCLEIC ACIDS RESEARCH (2012)
Rapid Genoserotyping Tool for Classification of Salmonella Serovars
Kristyn Franklin et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2011)
The Sequence Read Archive
Rasko Leinonen et al.
NUCLEIC ACIDS RESEARCH (2011)
Foodborne Illness Acquired in the United States-Major Pathogens
Elaine Scallan et al.
EMERGING INFECTIOUS DISEASES (2011)
Foodborne Illness Acquired in the United States-Unspecified Agents
Elaine Scallan et al.
EMERGING INFECTIOUS DISEASES (2011)
Adaptation of Salmonella spp. in juice stored under refrigerated and room temperature enhances acid resistance to simulated gastric fluid
H. G. Yuk et al.
FOOD MICROBIOLOGY (2006)