Literature DB >> 27008877

Practical Value of Food Pathogen Traceability through Building a Whole-Genome Sequencing Network and Database.

Marc W Allard1, Errol Strain2, David Melka2, Kelly Bunning2, Steven M Musser2, Eric W Brown2, Ruth Timme2.   

Abstract

The FDA has created a United States-based open-source whole-genome sequencing network of state, federal, international, and commercial partners. The GenomeTrakr network represents a first-of-its-kind distributed genomic food shield for characterizing and tracing foodborne outbreak pathogens back to their sources. The GenomeTrakr network is leading investigations of outbreaks of foodborne illnesses and compliance actions with more accurate and rapid recalls of contaminated foods as well as more effective monitoring of preventive controls for food manufacturing environments. An expanded network would serve to provide an international rapid surveillance system for pathogen traceback, which is critical to support an effective public health response to bacterial outbreaks.
Copyright © 2016, American Society for Microbiology. All Rights Reserved.

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Year:  2016        PMID: 27008877      PMCID: PMC4963501          DOI: 10.1128/JCM.00081-16

Source DB:  PubMed          Journal:  J Clin Microbiol        ISSN: 0095-1137            Impact factor:   5.948


  21 in total

1.  Molecular dissection of the evolution of carbapenem-resistant multilocus sequence type 258 Klebsiella pneumoniae.

Authors:  Frank R Deleo; Liang Chen; Stephen F Porcella; Craig A Martens; Scott D Kobayashi; Adeline R Porter; Kalyan D Chavda; Michael R Jacobs; Barun Mathema; Randall J Olsen; Robert A Bonomo; James M Musser; Barry N Kreiswirth
Journal:  Proc Natl Acad Sci U S A       Date:  2014-03-17       Impact factor: 11.205

2.  Whole-Genome Sequencing Analysis Accurately Predicts Antimicrobial Resistance Phenotypes in Campylobacter spp.

Authors:  S Zhao; G H Tyson; Y Chen; C Li; S Mukherjee; S Young; C Lam; J P Folster; J M Whichard; P F McDermott
Journal:  Appl Environ Microbiol       Date:  2015-10-30       Impact factor: 4.792

3.  Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae.

Authors:  Sean Conlan; Pamela J Thomas; Clayton Deming; Morgan Park; Anna F Lau; John P Dekker; Evan S Snitkin; Tyson A Clark; Khai Luong; Yi Song; Yu-Chih Tsai; Matthew Boitano; Jyoti Dayal; Shelise Y Brooks; Brian Schmidt; Alice C Young; James W Thomas; Gerard G Bouffard; Robert W Blakesley; James C Mullikin; Jonas Korlach; David K Henderson; Karen M Frank; Tara N Palmore; Julia A Segre
Journal:  Sci Transl Med       Date:  2014-09-17       Impact factor: 17.956

4.  Whole-genome sequencing of gentamicin-resistant Campylobacter coli isolated from U.S. retail meats reveals novel plasmid-mediated aminoglycoside resistance genes.

Authors:  Yuansha Chen; Sampa Mukherjee; Maria Hoffmann; Michael L Kotewicz; Shenia Young; Jason Abbott; Yan Luo; Maureen K Davidson; Marc Allard; Patrick McDermott; Shaohua Zhao
Journal:  Antimicrob Agents Chemother       Date:  2013-08-19       Impact factor: 5.191

5.  Characterization of Foodborne Outbreaks of Salmonella enterica Serovar Enteritidis with Whole-Genome Sequencing Single Nucleotide Polymorphism-Based Analysis for Surveillance and Outbreak Detection.

Authors:  Angela J Taylor; Victoria Lappi; William J Wolfgang; Pascal Lapierre; Michael J Palumbo; Carlota Medus; David Boxrud
Journal:  J Clin Microbiol       Date:  2015-08-12       Impact factor: 5.948

6.  Prediction of Staphylococcus aureus antimicrobial resistance by whole-genome sequencing.

Authors:  N C Gordon; J R Price; K Cole; R Everitt; M Morgan; J Finney; A M Kearns; B Pichon; B Young; D J Wilson; M J Llewelyn; J Paul; T E A Peto; D W Crook; A S Walker; T Golubchik
Journal:  J Clin Microbiol       Date:  2014-02-05       Impact factor: 5.948

7.  Rapid whole-genome sequencing for surveillance of Salmonella enterica serovar enteritidis.

Authors:  Henk C den Bakker; Marc W Allard; Dianna Bopp; Eric W Brown; John Fontana; Zamin Iqbal; Aristea Kinney; Ronald Limberger; Kimberlee A Musser; Matthew Shudt; Errol Strain; Martin Wiedmann; William J Wolfgang
Journal:  Emerg Infect Dis       Date:  2014-08       Impact factor: 6.883

8.  Complete Sequences of Six IncA/C Plasmids of Multidrug-Resistant Salmonella enterica subsp. enterica Serotype Newport.

Authors:  Guojie Cao; Marc W Allard; Maria Hoffmann; Steven R Monday; Tim Muruvanda; Yan Luo; Justin Payne; Lydia Rump; Kevin Meng; Shaohua Zhao; Patrick F McDermott; Eric W Brown; Jianghong Meng
Journal:  Genome Announc       Date:  2015-02-26

9.  Genomically Informed Surveillance for Carbapenem-Resistant Enterobacteriaceae in a Health Care System.

Authors:  Nicole D Pecora; Ning Li; Marc Allard; Cong Li; Esperanza Albano; Mary Delaney; Andrea Dubois; Andrew B Onderdonk; Lynn Bry
Journal:  MBio       Date:  2015-07-28       Impact factor: 7.867

10.  Comparative genomic analysis and virulence differences in closely related salmonella enterica serotype heidelberg isolates from humans, retail meats, and animals.

Authors:  Maria Hoffmann; Shaohua Zhao; James Pettengill; Yan Luo; Steven R Monday; Jason Abbott; Sherry L Ayers; Hediye N Cinar; Tim Muruvanda; Cong Li; Marc W Allard; Jean Whichard; Jianghong Meng; Eric W Brown; Patrick F McDermott
Journal:  Genome Biol Evol       Date:  2014-05       Impact factor: 3.416

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  107 in total

1.  Multistate outbreak of Salmonella Paratyphi B variant L(+) tartrate(+) and Salmonella Weltevreden infections linked to imported frozen raw tuna: USA, March-July 2015.

Authors:  R Hassan; S Tecle; B Adcock; M Kellis; J Weiss; A Saupe; A Sorenson; R Klos; J Blankenship; T Blessington; L Whitlock; H A Carleton; J Concepción-Acevedo; B Tolar; M Wise; K P Neil
Journal:  Epidemiol Infect       Date:  2018-06-08       Impact factor: 2.451

2.  Validating the AMRFinder Tool and Resistance Gene Database by Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of Isolates.

Authors:  Michael Feldgarden; Vyacheslav Brover; Daniel H Haft; Arjun B Prasad; Douglas J Slotta; Igor Tolstoy; Gregory H Tyson; Shaohua Zhao; Chih-Hao Hsu; Patrick F McDermott; Daniel A Tadesse; Cesar Morales; Mustafa Simmons; Glenn Tillman; Jamie Wasilenko; Jason P Folster; William Klimke
Journal:  Antimicrob Agents Chemother       Date:  2019-10-22       Impact factor: 5.191

Review 3.  Phylogenomic Pipeline Validation for Foodborne Pathogen Disease Surveillance.

Authors:  Ruth E Timme; Errol Strain; Joseph D Baugher; Steven Davis; Narjol Gonzalez-Escalona; Maria Sanchez Leon; Marc W Allard; Eric W Brown; Sandra Tallent; Hugh Rand
Journal:  J Clin Microbiol       Date:  2019-04-26       Impact factor: 5.948

Review 4.  Microbial source tracking using metagenomics and other new technologies.

Authors:  Shahbaz Raza; Jungman Kim; Michael J Sadowsky; Tatsuya Unno
Journal:  J Microbiol       Date:  2021-02-10       Impact factor: 3.422

5.  Unforeseen Consequences: Culture-Independent Diagnostic Tests and Epidemiologic Tracking of Foodborne Pathogens.

Authors:  Alexander J McAdam
Journal:  J Clin Microbiol       Date:  2017-05-03       Impact factor: 5.948

Review 6.  A Primer on Infectious Disease Bacterial Genomics.

Authors:  Tarah Lynch; Aaron Petkau; Natalie Knox; Morag Graham; Gary Van Domselaar
Journal:  Clin Microbiol Rev       Date:  2016-09-07       Impact factor: 26.132

Review 7.  Integrating Advanced Molecular Technologies into Public Health.

Authors:  Marta Gwinn; Duncan R MacCannell; Rima F Khabbaz
Journal:  J Clin Microbiol       Date:  2016-12-28       Impact factor: 5.948

8.  You can't always sequence your way out of a tight spot: Next-generation sequencing holds great promise for pathogen detection, but the devil is in the details.

Authors:  Todd J Treangen; Mihai Pop
Journal:  EMBO Rep       Date:  2018-11-21       Impact factor: 8.807

9.  Societal Implications of the Internet of Pathogens.

Authors:  Alexander L Greninger
Journal:  J Clin Microbiol       Date:  2019-05-24       Impact factor: 5.948

Review 10.  Persistent Infection and Long-Term Carriage of Typhoidal and Nontyphoidal Salmonellae.

Authors:  Ohad Gal-Mor
Journal:  Clin Microbiol Rev       Date:  2018-11-28       Impact factor: 26.132

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