From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile
Ready-to-eat (RTE) foods are the most common sources of <i>Listeria monocytogenes</i> transmission. Whole-genome sequencing (WGS) enhances the investigation of foodborne outbreaks by enabling the tracking of pathogen sources and the prediction of genetic traits related to virulence, stre...
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2025-01-01
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| Series: | Foods |
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| Online Access: | https://www.mdpi.com/2304-8158/14/2/290 |
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| author | Julio Parra-Flores Beatriz Daza-Prieto Pamela Chavarria Miriam Troncoso Anna Stöger Guillermo Figueroa Jetsi Mancilla-Rojano Ariadnna Cruz-Córdova Aleksandra Martinovic Werner Ruppitsch |
| author_facet | Julio Parra-Flores Beatriz Daza-Prieto Pamela Chavarria Miriam Troncoso Anna Stöger Guillermo Figueroa Jetsi Mancilla-Rojano Ariadnna Cruz-Córdova Aleksandra Martinovic Werner Ruppitsch |
| author_sort | Julio Parra-Flores |
| collection | DOAJ |
| description | Ready-to-eat (RTE) foods are the most common sources of <i>Listeria monocytogenes</i> transmission. Whole-genome sequencing (WGS) enhances the investigation of foodborne outbreaks by enabling the tracking of pathogen sources and the prediction of genetic traits related to virulence, stress, and antimicrobial resistance, which benefit food safety management. The aim of this study was to evaluate the efficacy of WGS in the typing of 16 <i>L. monocytogenes</i> strains isolated from refrigerated foods in Chile, highlighting its advantages in pathogen identification and the improvement of epidemiological surveillance and food safety. Using cgMLST, a cluster was identified comprising 2 strains with zero allele differences among the 16 strains evaluated. Ninety-four percent of the isolates (15/16) were serotype 1/2b, and 88% of them (14/16) were ST5. All strains shared identical virulence genes related to adhesion (<i>ami</i>, <i>iap</i>, <i>lapB</i>), stress resistance (<i>clpCEP</i>), invasion (<i>aut</i>, <i>iapcwhA</i>, <i>inlAB</i>, <i>lpeA</i>), toxin production (<i>hly</i>), and intracellular regulation (<i>prfA</i>), with only 13 strains exhibiting the <i>bcrBC</i> and <i>qacJ</i> gene, which confer resistance to quaternary ammonium. The pCFSAN010068_01 plasmids were prevalent, and insertion sequences (ISLs) and composite transposons (cns) were detected in 87.5% of the strains. The presence of various antibiotic resistance genes, along with resistance to thermal shocks and disinfectants, may provide <i>L. monocytogenes</i> ST5 strains with enhanced environmental resistance to the hygiene treatments used in the studied food production plant. |
| format | Article |
| id | doaj-art-20e404bd742441658545cbbf579def54 |
| institution | Kabale University |
| issn | 2304-8158 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | MDPI AG |
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| series | Foods |
| spelling | doaj-art-20e404bd742441658545cbbf579def542025-01-24T13:33:09ZengMDPI AGFoods2304-81582025-01-0114229010.3390/foods14020290From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in ChileJulio Parra-Flores0Beatriz Daza-Prieto1Pamela Chavarria2Miriam Troncoso3Anna Stöger4Guillermo Figueroa5Jetsi Mancilla-Rojano6Ariadnna Cruz-Córdova7Aleksandra Martinovic8Werner Ruppitsch9Department of Nutrition and Public Health, Universidad del Bío-Bío, Chillán 3780000, ChileInstitute of Medical Microbiology and Hygiene, Austrian Agency for Health and Food Safety, 1090 Vienna, AustriaDepartment of Nutrition and Public Health, Universidad del Bío-Bío, Chillán 3780000, ChileFundación Instituto Profesional Duoc UC, Santiago 8240000, ChileInstitute of Medical Microbiology and Hygiene, Austrian Agency for Health and Food Safety, 1090 Vienna, AustriaMicrobiology and Probiotics Laboratory, Institute of Nutrition and Food Technology, Universidad de Chile, Santiago 7830490, ChileImmunochemistry Research Laboratory, Hospital Infantil de México Federico Gómez, Mexico City 06720, MexicoImmunochemistry Research Laboratory, Hospital Infantil de México Federico Gómez, Mexico City 06720, MexicoFaculty of Food Technology, Food Safety and Ecology, University of Donja Gorica, 81000 Podgorica, MontenegroInstitute of Medical Microbiology and Hygiene, Austrian Agency for Health and Food Safety, 1090 Vienna, AustriaReady-to-eat (RTE) foods are the most common sources of <i>Listeria monocytogenes</i> transmission. Whole-genome sequencing (WGS) enhances the investigation of foodborne outbreaks by enabling the tracking of pathogen sources and the prediction of genetic traits related to virulence, stress, and antimicrobial resistance, which benefit food safety management. The aim of this study was to evaluate the efficacy of WGS in the typing of 16 <i>L. monocytogenes</i> strains isolated from refrigerated foods in Chile, highlighting its advantages in pathogen identification and the improvement of epidemiological surveillance and food safety. Using cgMLST, a cluster was identified comprising 2 strains with zero allele differences among the 16 strains evaluated. Ninety-four percent of the isolates (15/16) were serotype 1/2b, and 88% of them (14/16) were ST5. All strains shared identical virulence genes related to adhesion (<i>ami</i>, <i>iap</i>, <i>lapB</i>), stress resistance (<i>clpCEP</i>), invasion (<i>aut</i>, <i>iapcwhA</i>, <i>inlAB</i>, <i>lpeA</i>), toxin production (<i>hly</i>), and intracellular regulation (<i>prfA</i>), with only 13 strains exhibiting the <i>bcrBC</i> and <i>qacJ</i> gene, which confer resistance to quaternary ammonium. The pCFSAN010068_01 plasmids were prevalent, and insertion sequences (ISLs) and composite transposons (cns) were detected in 87.5% of the strains. The presence of various antibiotic resistance genes, along with resistance to thermal shocks and disinfectants, may provide <i>L. monocytogenes</i> ST5 strains with enhanced environmental resistance to the hygiene treatments used in the studied food production plant.https://www.mdpi.com/2304-8158/14/2/290<i>Listeria monocytogenes</i>whole-genome sequencingantimicrobial resistance genesvirulence genes |
| spellingShingle | Julio Parra-Flores Beatriz Daza-Prieto Pamela Chavarria Miriam Troncoso Anna Stöger Guillermo Figueroa Jetsi Mancilla-Rojano Ariadnna Cruz-Córdova Aleksandra Martinovic Werner Ruppitsch From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile Foods <i>Listeria monocytogenes</i> whole-genome sequencing antimicrobial resistance genes virulence genes |
| title | From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile |
| title_full | From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile |
| title_fullStr | From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile |
| title_full_unstemmed | From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile |
| title_short | From Traditional Typing to Genomic Precision: Whole-Genome Sequencing of <i>Listeria monocytogenes</i> Isolated from Refrigerated Foods in Chile |
| title_sort | from traditional typing to genomic precision whole genome sequencing of i listeria monocytogenes i isolated from refrigerated foods in chile |
| topic | <i>Listeria monocytogenes</i> whole-genome sequencing antimicrobial resistance genes virulence genes |
| url | https://www.mdpi.com/2304-8158/14/2/290 |
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