Results 71 to 80 of about 1,163 (164)

Comparison of Whole Genome (wg-) and Core Genome (cg-) MLST (BioNumericsTM) Versus SNP Variant Calling for Epidemiological Investigation of Pseudomonas aeruginosa

Frontiers in Microbiology, 2020
Whole genome sequencing (WGS) is increasingly used for epidemiological investigations of pathogens. While SNP variant calling is currently considered as the most suitable method, the choice of a representative reference genome and the isolate dependency ...
Dominique S. Blanc, Bárbara Magalhães, Isabelle Koenig, Laurence Senn, Bruno Grandbastien   +4 more
doaj   +1 more source

Persistence of microbiological hazards in food and feed production and processing environments

EFSA Journal, Volume 22, Issue 1, January 2024.
Abstract Listeria monocytogenes (in the meat, fish and seafood, dairy and fruit and vegetable sectors), Salmonella enterica (in the feed, meat, egg and low moisture food sectors) and Cronobacter sakazakii (in the low moisture food sector) were identified as the bacterial food safety hazards most relevant to public health that are associated with ...
EFSA Panel on Biological Hazards (BIOHAZ), Konstantinos Koutsoumanis, Ana Allende, Declan Bolton, Sara Bover‐Cid, Marianne Chemaly, Alessandra De Cesare, Lieve Herman, Friederike Hilbert, Roland Lindqvist, Maarten Nauta, Romolo Nonno, Luisa Peixe, Giuseppe Ru, Marion Simmons, Panagiotis Skandamis, Elisabetta Suffredini, Edward Fox, Rebecca (Becky) Gosling, Beatriz Melero Gil, Trond Møretrø, Beatrix Stessl, Maria Teresa da Silva Felício, Winy Messens, Ancuta Cezara Simon, Avelino Alvarez‐Ordóñez   +25 more
wiley   +1 more source

Genetic relationships according to core SNPs, cgMLST and wgMLST.

, 2018
(A) Maximum parsimony genealogy of 73 genomes of serovar Agona based on 846 nonhomoplastic, nonrecombinant, nonmobile, nonrepetitive core SNPs. Modified from Fig 1 of Zhou et al. [20].
Zhemin Zhou (157214), Nabil-Fareed Alikhan (5066198), Martin J. Sergeant (161344), Mark Achtman (126786)   +3 more
core   +1 more source

Whole-genome sequencing for the characterization of resistance mechanisms and epidemiology of colistin-resistant Acinetobacter baumannii.

PLoS ONE, 2022
BackgroundMultidrug-resistant Acinetobacter baumannii is an important causal pathogen of healthcare-associated infections, and colistin-resistant strains have recently emerged owing to the increased use of colistin. Using next-generation sequencing (NGS),
Chorong Hahm, Hae-Sun Chung, Miae Lee
doaj   +1 more source

Neighbor-joining tree based on the wgMLST analysis of K. pneumonia isolates from the prevalence survey of bean sprout samples (2013–2016), using a pairwise ignore missing values approach.

, 2018
Scale shows genetic distance. wgMLST clusters are color coded (ID and MLST) as is the store of purchase. The date is the expiration date unless labeled with * in which case date of purchase of the sample is depicted.
Jan Kluytmans (309073), Alexander W. Friedrich (79972), Ina Willemsen (538600), Pepijn Huizinga (5703683), Paul H. M. Savelkoul (317249), Eefje Schrauwen (5703686), John W. Rossen (519315), Silvia García-Cobos (777258), Carlo Verhulst (821102)   +8 more
core   +1 more source

Genotyping and Antibiotic Resistance Traits in Campylobacter jejuni and coli From Pigs and Wild Boars in Italy

Frontiers in Cellular and Infection Microbiology, 2020
The present study investigated the genomic constitution and antimicrobial resistance (AMR) of 238 Campylobacter from pigs and wild boars in Italy between 2012 and 2019.
Francesca Marotta, Lisa Di Marcantonio, Anna Janowicz, Francesca Pedonese, Guido Di Donato, Adrian Ardelean, Roberta Nuvoloni, Elisabetta Di Giannatale, Giuliano Garofolo   +8 more
doaj   +1 more source

Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox

Frontiers in Sustainable Food Systems, 2021
Whole-genome sequencing (WGS) technologies are rapidly being adopted for routine use in food microbiology laboratories worldwide. Examples of how WGS is used to support food safety testing include gene marker discovery (e.g., virulence and anti-microbial
Catherine D. Carrillo, Burton W. Blais
doaj   +1 more source

Neighbor-joining tree based on the wgMLST analysis of K. pneumonia isolates from multiple batches of bean sprouts, using a pairwise ignore missing values approach.

, 2018
Scale shows genetic distance. A batch was defined as bean sprout samples purchased on the same day from the same supermarket chain. wgMLST clusters are color coded (ID and MLST) as are store and batch of purchase.
Jan Kluytmans (309073), Alexander W. Friedrich (79972), Ina Willemsen (538600), Pepijn Huizinga (5703683), Paul H. M. Savelkoul (317249), Eefje Schrauwen (5703686), John W. Rossen (519315), Silvia García-Cobos (777258), Carlo Verhulst (821102)   +8 more
core   +1 more source

Culture of Clinical Specimens Reveals Extensive Diversity of Legionella pneumophila Strains in Arizona

mSphere, 2019
Between 2000 and 2017, a total of 236 Legionella species isolates from Arizona were submitted to the CDC for reference testing. Most of these isolates were recovered from bronchoalveolar lavage specimens.
Brian H. Raphael, Trung Huynh, Ellen Brown, Jessica C. Smith, Irene Ruberto, Linda Getsinger, Stacy White, Jonas M. Winchell   +7 more
doaj   +1 more source

Data_Sheet_1_cano-wgMLST_BacCompare: A Bacterial Genome Analysis Platform for Epidemiological Investigation and Comparative Genomic Analysis.PDF

, 2019
With the decreasing cost of next-generation sequencing, whole-genome sequence-based bacterial genome comparisons are expected to become a mainstream process in the public health domain.
Yen-Yi Liu (183718), Chih-Chieh Chen (20257), Ji-Wei Lin (7035203)   +2 more
core   +1 more source