Whole-Genome Sequencing Is Taking over Foodborne Disease Surveillance

2016 ◽  
Vol 11 (7) ◽  
pp. 311-317 ◽  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Disease Surveillance ◽  
Whole Genome ◽  
Foodborne Disease

OzFoodNet into the future: the rapid evolution of foodborne disease surveillance in Australia

2017 ◽  
Vol 38 (4) ◽  
pp. 179
Author(s):  
Ben Polkinghorne ◽  
Anthony Draper ◽  
Michelle Harlock ◽  
Robyn Leader
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Diagnostic Tests ◽  
Disease Surveillance ◽  
Rapid Evolution ◽  
Enteric Pathogens ◽  
Whole Genome ◽  
Foodborne Disease ◽  
Surveillance Network ◽  
Culture Independent

OzFoodNet is Australia's national enhanced foodborne disease surveillance network. OzFoodNet is currently evolving in order to meet the most significant challenges faced since it commenced in 2000: the transition to culture independent diagnostic tests and the introduction of whole genome sequencing for typing of enteric pathogens. This has changed the nature of foodborne disease surveillance and outbreak investigation in Australia.

scholarly journals Salmonella identified in pigs in Kenya and Malawi reveals the potential for zoonotic transmission in emerging pork markets

2020 ◽  
Vol 14 (11) ◽  
pp. e0008796 ◽  
Author(s):  
Catherine N. Wilson ◽  
Caisey V. Pulford ◽  
James Akoko ◽  
Blanca Perez Sepulveda ◽  
Alexander V. Predeus ◽  
...  
Keyword(s):  
Lymph Node ◽  
Whole Genome Sequencing ◽  
Bloodstream Infection ◽  
Genome Sequencing ◽  
Mesenteric Lymph Node ◽  
Zoonotic Transmission ◽  
Whole Genome ◽  
Foodborne Disease ◽  
Mesenteric Lymph ◽  
The Uk

Salmonella is a major cause of foodborne disease globally. Pigs can carry and shed non-typhoidal Salmonella (NTS) asymptomatically, representing a significant reservoir for these pathogens. To investigate Salmonella carriage by African domestic pigs, faecal and mesenteric lymph node samples were taken at slaughter in Nairobi, Busia (Kenya) and Chikwawa (Malawi) between October 2016 and May 2017. Selective culture, antisera testing and whole genome sequencing were performed on samples from 647 pigs; the prevalence of NTS carriage was 12.7% in Busia, 9.1% in Nairobi and 24.6% in Chikwawa. Two isolates of S. Typhimurium ST313 were isolated, but were more closely related to ST313 isolates associated with gastroenteritis in the UK than bloodstream infection in Africa. The discovery of porcine NTS carriage in Kenya and Malawi reveals potential for zoonotic transmission of diarrhoeal strains to humans in these countries, but not for transmission of clades specifically associated with invasive NTS disease in Africa.

scholarly journals Interpretation of Whole-Genome Sequencing for Enteric Disease Surveillance and Outbreak Investigation

2019 ◽  
Vol 16 (7) ◽  
pp. 504-512 ◽  
Author(s):  
John M. Besser ◽  
Heather A. Carleton ◽  
Eija Trees ◽  
Steven G. Stroika ◽  
Kelley Hise ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Disease Surveillance ◽  
Outbreak Investigation ◽  
Whole Genome ◽  
Enteric Disease

scholarly journals PulseNet International: Vision for the implementation of whole genome sequencing (WGS) for global food-borne disease surveillance

2017 ◽  
Vol 22 (23) ◽  
Author(s):  
Celine Nadon ◽  
Ivo Van Walle ◽  
Peter Gerner-Smidt ◽  
Josefina Campos ◽  
Isabel Chinen ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Real Time ◽  
Genome Sequencing ◽  
Disease Surveillance ◽  
The United States ◽  
Global Network ◽  
Asia Pacific ◽  
Whole Genome ◽  
Source Attribution ◽  
Food Borne

PulseNet International is a global network dedicated to laboratory-based surveillance for food-borne diseases. The network comprises the national and regional laboratory networks of Africa, Asia Pacific, Canada, Europe, Latin America and the Caribbean, the Middle East, and the United States. The PulseNet International vision is the standardised use of whole genome sequencing (WGS) to identify and subtype food-borne bacterial pathogens worldwide, replacing traditional methods to strengthen preparedness and response, reduce global social and economic disease burden, and save lives. To meet the needs of real-time surveillance, the PulseNet International network will standardise subtyping via WGS using whole genome multilocus sequence typing (wgMLST), which delivers sufficiently high resolution and epidemiological concordance, plus unambiguous nomenclature for the purposes of surveillance. Standardised protocols, validation studies, quality control programmes, database and nomenclature development, and training should support the implementation and decentralisation of WGS. Ideally, WGS data collected for surveillance purposes should be publicly available, in real time where possible, respecting data protection policies. WGS data are suitable for surveillance and outbreak purposes and for answering scientific questions pertaining to source attribution, antimicrobial resistance, transmission patterns, and virulence, which will further enable the protection and improvement of public health with respect to food-borne disease.

scholarly journals Whole-Genome Sequencing of Six Strains of Salmonella enterica Isolated from Imported Meat in Algeria

2019 ◽  
Vol 8 (35) ◽  
Author(s):  
A. Deriet ◽  
M. Berrazeg ◽  
S. C. J. De Keersmaecker ◽  
N. Botteldoorn ◽  
K. Vanneste ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Virulence Factors ◽  
Salmonella Enterica ◽  
Whole Genome ◽  
Foodborne Disease ◽  
Content Type

Nontyphoidal Salmonella (NTS) is one of the main causes of foodborne disease worldwide. In this report, we announce the first whole-genome sequencing of six strains of Salmonella enterica isolated from imported meat in Algeria. The genome sizes ranged from 4,601,209 to 4,958,962 bp. Antimicrobial resistance (AMR) genes, plasmids, and virulence factors were detected.

Utility of Whole Genome Sequencing in diagnosing complex disorders: lesson from renal tubular disorders

2018 ◽  
Author(s):  
Mark Stevenson ◽  
Alistair T Pagnamenta ◽  
Heather G Mack ◽  
Judith A Savige ◽  
Kate E Lines ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Whole Genome ◽  
Complex Disorders ◽  
Tubular Disorders ◽  
Renal Tubular Disorders ◽  
Renal Tubular

0306 Exploring the feasibility of using copy number variants as genetic markers through large-scale whole genome sequencing experiments

2016 ◽  
Vol 94 (suppl_5) ◽  
pp. 146-146
Author(s):  
D. M. Bickhart ◽  
L. Xu ◽  
J. L. Hutchison ◽  
J. B. Cole ◽  
D. J. Null ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genetic Markers ◽  
Genome Sequencing ◽  
Copy Number ◽  
Large Scale ◽  
Copy Number Variants ◽  
Whole Genome
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