Cargando…
Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka
A total of 73 nontyphoidal Salmonella enterica isolates, 33 from raw chicken meat and 40 from routine clinical specimens, were collected between 2015 and 2017 from eight cities in Sri Lanka for a pilot study of whole-genome sequencing for Salmonella surveillance. The isolates were characterized by c...
Autores principales: | , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Mary Ann Liebert, Inc., publishers
2019
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6653781/ https://www.ncbi.nlm.nih.gov/pubmed/31099590 http://dx.doi.org/10.1089/fpd.2018.2604 |
_version_ | 1783438599849508864 |
---|---|
author | Tay, Moon Y.F. Pathirage, Sujatha Chandrasekaran, Lakshmi Wickramasuriya, Uddami Sadeepanie, Nirasha Waidyarathna, Kaushalya D.K. Liyanage, Liyanaralalage Dilini Chathurika Seow, Kelyn L.G. Hendriksen, Rene S. Takeuchi, Masami T. Schlundt, Joergen |
author_facet | Tay, Moon Y.F. Pathirage, Sujatha Chandrasekaran, Lakshmi Wickramasuriya, Uddami Sadeepanie, Nirasha Waidyarathna, Kaushalya D.K. Liyanage, Liyanaralalage Dilini Chathurika Seow, Kelyn L.G. Hendriksen, Rene S. Takeuchi, Masami T. Schlundt, Joergen |
author_sort | Tay, Moon Y.F. |
collection | PubMed |
description | A total of 73 nontyphoidal Salmonella enterica isolates, 33 from raw chicken meat and 40 from routine clinical specimens, were collected between 2015 and 2017 from eight cities in Sri Lanka for a pilot study of whole-genome sequencing for Salmonella surveillance. The isolates were characterized by conventional serotyping and whole-genome sequencing. The raw sequenced data were assembled and analyzed to predict Salmonella serotypes, determine sequence type (ST) profiles of genome and plasmid, and identify plasmid replicon sequences and antimicrobial resistance (AMR) genes. The most common serovar isolated from chicken meat was Salmonella enterica serovar Agona of ST13 (n = 16), in contrast to Salmonella enterica serovar Enteritidis of ST11 (n = 21) in human. Salmonella enterica serovar Corvallis is the only serovar that was overlapping between human and chicken meat. The level of agreement between serotyping and serotype prediction results was 100%. Among the 33 chicken isolates, multidrug resistance (MDR) was observed in five isolates, including two Salmonella enterica serovar Kentucky ST314, which harbored six different classes of AMR determinants. Among the 40 human isolates, MDR was detected in two Salmonella enterica serovar Chester (ST2063) isolates containing five different antibiotic classes of AMR determinants. Out of 73 isolates, the only human Salmonella enterica serovar Typhimurium strain of ST36 was found to possess extended-spectrum beta-lactamase (ESBL) gene, bla(CTX-M-15), and it was positive for ESBL production. In summary, this study identified S. enterica serovars that were dominating in chicken meat and human and showed the genomic differences among the chicken meat and human strains. It should be noted that the limited number of isolates and sampling at a different time period means that thorough source attribution is not possible. To the best of our knowledge, this is the first report on the use of whole-genome sequencing analysis of nontyphoidal S. enterica isolated from chicken meat and human in Sri Lanka. |
format | Online Article Text |
id | pubmed-6653781 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Mary Ann Liebert, Inc., publishers |
record_format | MEDLINE/PubMed |
spelling | pubmed-66537812019-07-25 Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka Tay, Moon Y.F. Pathirage, Sujatha Chandrasekaran, Lakshmi Wickramasuriya, Uddami Sadeepanie, Nirasha Waidyarathna, Kaushalya D.K. Liyanage, Liyanaralalage Dilini Chathurika Seow, Kelyn L.G. Hendriksen, Rene S. Takeuchi, Masami T. Schlundt, Joergen Foodborne Pathog Dis Original Articles A total of 73 nontyphoidal Salmonella enterica isolates, 33 from raw chicken meat and 40 from routine clinical specimens, were collected between 2015 and 2017 from eight cities in Sri Lanka for a pilot study of whole-genome sequencing for Salmonella surveillance. The isolates were characterized by conventional serotyping and whole-genome sequencing. The raw sequenced data were assembled and analyzed to predict Salmonella serotypes, determine sequence type (ST) profiles of genome and plasmid, and identify plasmid replicon sequences and antimicrobial resistance (AMR) genes. The most common serovar isolated from chicken meat was Salmonella enterica serovar Agona of ST13 (n = 16), in contrast to Salmonella enterica serovar Enteritidis of ST11 (n = 21) in human. Salmonella enterica serovar Corvallis is the only serovar that was overlapping between human and chicken meat. The level of agreement between serotyping and serotype prediction results was 100%. Among the 33 chicken isolates, multidrug resistance (MDR) was observed in five isolates, including two Salmonella enterica serovar Kentucky ST314, which harbored six different classes of AMR determinants. Among the 40 human isolates, MDR was detected in two Salmonella enterica serovar Chester (ST2063) isolates containing five different antibiotic classes of AMR determinants. Out of 73 isolates, the only human Salmonella enterica serovar Typhimurium strain of ST36 was found to possess extended-spectrum beta-lactamase (ESBL) gene, bla(CTX-M-15), and it was positive for ESBL production. In summary, this study identified S. enterica serovars that were dominating in chicken meat and human and showed the genomic differences among the chicken meat and human strains. It should be noted that the limited number of isolates and sampling at a different time period means that thorough source attribution is not possible. To the best of our knowledge, this is the first report on the use of whole-genome sequencing analysis of nontyphoidal S. enterica isolated from chicken meat and human in Sri Lanka. Mary Ann Liebert, Inc., publishers 2019-07-01 2019-07-09 /pmc/articles/PMC6653781/ /pubmed/31099590 http://dx.doi.org/10.1089/fpd.2018.2604 Text en © Moon Y.F. Tay, et al. 2019; Published by Mary Ann Liebert, Inc. This Open Access article is distributed under the terms of the Creative Commons License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Original Articles Tay, Moon Y.F. Pathirage, Sujatha Chandrasekaran, Lakshmi Wickramasuriya, Uddami Sadeepanie, Nirasha Waidyarathna, Kaushalya D.K. Liyanage, Liyanaralalage Dilini Chathurika Seow, Kelyn L.G. Hendriksen, Rene S. Takeuchi, Masami T. Schlundt, Joergen Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka |
title | Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka |
title_full | Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka |
title_fullStr | Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka |
title_full_unstemmed | Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka |
title_short | Whole-Genome Sequencing Analysis of Nontyphoidal Salmonella enterica of Chicken Meat and Human Origin Under Surveillance in Sri Lanka |
title_sort | whole-genome sequencing analysis of nontyphoidal salmonella enterica of chicken meat and human origin under surveillance in sri lanka |
topic | Original Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6653781/ https://www.ncbi.nlm.nih.gov/pubmed/31099590 http://dx.doi.org/10.1089/fpd.2018.2604 |
work_keys_str_mv | AT taymoonyf wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT pathiragesujatha wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT chandrasekaranlakshmi wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT wickramasuriyauddami wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT sadeepanienirasha wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT waidyarathnakaushalyadk wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT liyanageliyanaralalagedilinichathurika wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT seowkelynlg wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT hendriksenrenes wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT takeuchimasamit wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka AT schlundtjoergen wholegenomesequencinganalysisofnontyphoidalsalmonellaentericaofchickenmeatandhumanoriginundersurveillanceinsrilanka |