The China National Foodborne Pathogen Surveillance System: Twenty Years of Experience and Achievements

2021 ◽  
Author(s):  
Ying Li ◽  
Xiaoyan Pei ◽  
Li Bai ◽  
Lin Yan ◽  
Shuran Yang ◽  
...  
Keyword(s):  
Surveillance System ◽  
Foodborne Pathogen ◽  
Years Of Experience ◽  
Pathogen Surveillance

scholarly journals Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance

2017 ◽  
Author(s):  
Ruth E Timme ◽  
Hugh Rand ◽  
Martin Shumway ◽  
Eija K Trees ◽  
Mustafa Simmons ◽  
...  
Keyword(s):  
Foodborne Pathogen ◽  
Benchmark Datasets ◽  
Pathogen Surveillance

Guidance for populating GenomeTrakr metadata templates (BioSample and SRA) v2

2021 ◽  
Author(s):  
Ruth E Timme ◽  
Maria Balkey ◽  
William Wolfgang ◽  
Errol Strain
Keyword(s):  
One Health ◽  
Foodborne Pathogen ◽  
Incremental Update ◽  
The One ◽  
Pathogen Surveillance

PURPOSE: Guidance on how to populate NCBI's metadata packages, maximizing interoperability for foodborne pathogen surveillance. SCOPE: This protocol provides detailed instructions for populating the following two templates: 1. BioSample metadata: guidelines to populate the GenomeTrakr-extended pathogen package. 2. SRA metadata: NCBI's generic sequence metadata template for SRA submissions. Versions: v6: Added the One Health Enteric package presented at IAFP 2021 meeting. v7: Updated the picklists in the GenomeTrakr-extended pathogen package, "GT-pathogen package-OHE v0.2.2.xlsx" and added an incremental update file for the DRAFT One Health Enteric Package that includes extensive edits compared to v6.

scholarly journals Detection and investigation of temporal clusters of congenital anomaly in Europe: seven years of experience of the EUROCAT surveillance system

2015 ◽  
Vol 30 (11) ◽  
pp. 1153-1164 ◽  
Author(s):  
Helen Dolk ◽  
Maria Loane ◽  
Conor Teljeur ◽  
James Densem ◽  
Ruth Greenlees ◽  
...  
Keyword(s):  
Congenital Anomaly ◽  
Surveillance System ◽  
Years Of Experience

scholarly journals Awareness and Attitude toward Infection Control among Health Care Workers during Coronavirus Disease-19 Pandemic, Egypt

2021 ◽  
Vol 9 (E) ◽  
pp. 167-178
Author(s):  
Ahmed Yamany Ali ◽  
Abeer Attia Abdelkhalik ◽  
Shereen Esmat ◽  
Walaa Alsharany Abuelhamd ◽  
Hend Abdullah Elshemy ◽  
...  
Keyword(s):  
Health Care ◽  
Infection Control ◽  
Health Care Workers ◽  
Surveillance System ◽  
Years Of Experience ◽  
Private Hospitals ◽  
Control Policies ◽  
Infection Control Program ◽  
Care Workers ◽  
Significant Difference

BACKGROUND: Coronavirus disease (COVID)-19 emerges worldwide consideration since their first proving. The knowledge and attitude of all medical personnel play an important role in the effectiveness of infection control policies among medical institutions. AIM: The study evaluates the knowledge of health care workers (HCWs) about infection control policies at the Egyptian institutions trying to identify the degree of their awareness to deal with such outbreak. METHODS: A cross-sectional study was implemented in public and private hospitals sectors at Cairo, Egypt, through a structured self-administered questionnaire that was delivered to HCWs in the selected hospitals. RESULTS: A total of 486 physicians working between university, governmental, teaching, private hospitals, and polyclinics submitted their replies. Of whom, 46.9% practiced internal medicine specialty, 35.4% were pediatricians, and only 17.7% specialized in the family medicine. Regarding the overall level of knowledge about infection control and prevention among HCWs, we found that 87.2% of participants reported presence of infection control program at their institutions and about 79% practiced these policies while only 60.5% received some training. Furthermore, we found that 64.2% of the participant did not know which infections are officially reported. There was some variation in response to causes related to the outbreak as 43.8% referred that to shortage of appropriate personnel protective equipment and only 7.4% assigned the carelessness of HCWs. Moreover, the insufficient resources to fulfill the infection control requirements were assigned as a primary factor to spread of infection (71.4%). The electronic surveillance system was believed the most efficient reporting system of infectious agents by staff (83.1%). The study revealed that there was a statistically significant difference of knowledge of infection control among medical staff according to their specialties (p ≤ 0.05). Moreover, there was a significant trend of orientation about infection control toward the highly certificated individuals (having PhD). Furthermore, there was a potential variance between the groups of higher and lower years of experience regarding in their answers about surveillance system institutions (p ≤ 0.05). In addition, there was variation in responses to questions related to various institutions as a higher percent of awareness of the presence of active infection control policy was found at the governmental and university hospitals (p < 0.05). CONCLUSION: HCWs had reasonable knowledge about infection control and surveillance during COVID-19 outbreak and we have discovered zones of concern about infection control experience in Egypt which differ between institutions and professions and years of experience.

scholarly journals Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises

2020 ◽  
Vol 7 (1) ◽  
Author(s):  
Ruth E. Timme ◽  
Patricia C. Lafon ◽  
Maria Balkey ◽  
Jennifer K. Adams ◽  
Darlene Wagner ◽  
...  
Keyword(s):  
Proficiency Test ◽  
Foodborne Pathogen ◽  
Genomic Data ◽  
Standard Operating Procedure ◽  
Single Strain ◽  
The Us ◽  
Standard Operating ◽  
Proficiency Test Data ◽  
Reference Genomes ◽  
Pathogen Surveillance

AbstractThe US PulseNet and GenomeTrakr laboratory networks work together within the Genomics for Food Safety (Gen-FS) consortium to collect and analyze genomic data for foodborne pathogen surveillance (species include Salmonella enterica, Listeria monocytogenes, Escherichia coli (STECs), and Campylobactor). In 2017 these two laboratory networks started harmonizing their respective proficiency test exercises, agreeing on distributing a single strain-set and following the same standard operating procedure (SOP) for genomic data collection, running a jointly coordinated annual proficiency test exercise. In this data release we are publishing the reference genomes and raw data submissions for the 2017 and 2018 proficiency test exercises.

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