Whole-Genome Sequence of a Reemerging Listeria monocytogenes Serovar 1/2a Strain in Central Italy

Orsini, Massimiliano; Torresi, Marina; Patavino, Claudio; Centorame, Patrizia; Rinaldi, Antonio; Acciari, Vicdalia Aniela; Centorotola, Gabriella; Marcacci, Maurilia; Ancora, Massimo; Domenico, Marco Di; Blasi, Giuliana; Duranti, Anna; Perticara, Samuel; Pasquale, Adriano Di; Cammà, Cesare; Pomilio, Francesco; Migliorati, Giacomo

doi:10.1128/mra.01069-18

Cited by 8 publications

(8 citation statements)

References 8 publications

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“…Moreover, the GWAS results revealed the association of the EpiCl + ReE and C2 clusters with cassette genes including genes that encode single-stranded DNA-binding protein, site-specific integrase, and hypothetical protein that was annotated in the ReE clinical strain previously published by Orsini et al (2018b) (CP029372.1).…”

Section: Discussionmentioning

confidence: 99%

“…The epidemic strain reemerged in March 2018 in the same Region causing a new sporadic case of listeriosis in a 10-month-old child ( Orsini et al, 2018b ). Very interestingly, during the epidemiological investigation, from the environmental samples collected in the child’s home, both the PFGE profiles (the epidemic strain and the one closely related to it) were isolated.…”

Section: Introductionmentioning

confidence: 99%

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Phylogenetic Analysis and Genome-Wide Association Study Applied to an Italian Listeria monocytogenes Outbreak

et al. 2021

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From May 2015 to March 2016, a severe outbreak due to Listeria monocytogenes ST7 strain occurred in Central Italy and caused 24 confirmed clinical cases. The epidemic strain was deeply investigated using whole-genome sequencing (WGS) analysis. In the interested area, the foodborne outbreak investigation identified a meat food-producing plant contaminated by the outbreak strain, carried by pork-ready-to-eat products. In the same region, in March 2018, the epidemic strain reemerged causing one listeriosis case in a 10-month-old child. The aim of this study was to investigate the phylogeny of the epidemic and reemergent strains over time and to compare them with a closer ST7 clone, detected during the outbreak and with different pulsed-field gel electrophoresis (PFGE) profiles, in order to identify genomic features linked to the persistence and the reemergence of the outbreak. An approach combining phylogenetic analysis and genome-wide association study (GWAS) revealed that the epidemic and reemergent clones were genetically closer to the ST7 clone with different PFGE profiles and strictly associated with the pork production chain. The repeated detection of both clones was probably correlated with (i) the presence of truly persistent clones and the repeated introduction of new ones and (ii) the contribution of prophage genes in promoting the persistence of the epidemic clones. Despite that no significant genomic differences were detected between the outbreak and the reemergent strain, the two related clones detected during the outbreak can be differentiated by transcriptional factor and phage genes associated with the phage LP-114.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Phylogenetic Analysis and Genome-Wide Association Study Applied to an Italian Listeria monocytogenes Outbreak

et al. 2021

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“…This cluster, never detected before in any of the studied FPEs, were recovered in one FPP and two different RS, showing how the Lm outbreak strain was widely circulating in the FPE of central Italy. Moreover, this clone re-emerged in the same area during 2018, when it was isolated from a child affected by listeriosis, presenting only 13 single-nucleotide polymorphisms (SNPs) of difference from the original outbreak strain [50]. All these findings emphasized the need for continuous monitoring in order to avoid the recurrence of new listeriosis outbreaks.…”

Section: Distribution Of Ccs and Cg-mlst Clusters And Their Virulence And Stress Resistance Profilesmentioning

confidence: 99%

Intensive Environmental Surveillance Plan for Listeria monocytogenes in Food Producing Plants and Retail Stores of Central Italy: Prevalence and Genetic Diversity

Centorotola

Guidi

D'Aurizio³

et al. 2021

Foods

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Listeria monocytogenes (Lm) can persist in food processing environments (FPEs), surviving environmental stresses and disinfectants. We described an intensive environmental monitoring plan performed in Central Italy and involving food producing plants (FPPs) and retail grocery stores (RSs). The aim of the study was to provide a snapshot of the Lm circulation in different FPEs during a severe listeriosis outbreak, using whole genome sequencing (WGS) to investigate the genetic diversity of the Lm isolated, evaluating their virulence and stress resistance profiles. A total of 1217 samples were collected in 86 FPEs with 12.0% of positive surfaces at FPPs level and 7.5% at RSs level; 133 Lm isolates were typed by multilocus sequencing typing (MLST) and core genome MLST (cgMLST). Clonal complex (CC) 121 (25.6%), CC9 (22.6%), CC1 (11.3%), CC3 (10.5%), CC191 (4.5%), CC7 (4.5%) and CC31 (3.8%) were the most frequent MLST clones. Among the 26 cgMLST clusters obtained, 5 of them persisted after sanitization and were re-isolated during the follow-up sampling. All the CC121 harboured the Tn6188_qac gene for tolerance to benzalkonium chloride and the stress survival islet SSI-2. The CC3, CC7, CC9, CC31 and CC191 carried the SSI-1. All the CC9 and CC121 strains presented a premature stop codon in the inlA gene. In addition to the Lm Pathogenicity Island 1 (LIPI-1), CC1, CC3 and CC191 harboured the LIPI-3. The application of intensive environmental sampling plans for the detection and WGS analysis of Lm isolates could improve surveillance and early detection of outbreaks.

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“…The raw reads of the 272 newly sequenced isolates of the study were deposited at EBI under Project number PRJEB34036 (see Table S1 ). The raw reads of all available Italian genomes of human isolates, isolated in the years 2012–2018, were recovered from Sequence Reads Archive of NCBI [see ( 11 – 14 )]. Table S2 provides a complete list of the accession numbers of the NCBI raw reads used.…”

Section: Methodsmentioning

confidence: 99%

Population Structure of Listeria monocytogenes in Emilia-Romagna (Italy) and Implications on Whole Genome Sequencing Surveillance of Listeriosis

Scaltriti

Bolzoni

Vocale

et al. 2020

Front. Public Health

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Whole-Genome Sequence of a Reemerging Listeria monocytogenes Serovar 1/2a Strain in Central Italy

Cited by 8 publications

References 8 publications

Phylogenetic Analysis and Genome-Wide Association Study Applied to an Italian Listeria monocytogenes Outbreak

Phylogenetic Analysis and Genome-Wide Association Study Applied to an Italian Listeria monocytogenes Outbreak

Intensive Environmental Surveillance Plan for Listeria monocytogenes in Food Producing Plants and Retail Stores of Central Italy: Prevalence and Genetic Diversity

Population Structure of Listeria monocytogenes in Emilia-Romagna (Italy) and Implications on Whole Genome Sequencing Surveillance of Listeriosis

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