Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains

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Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains. / Barco, L.; Mancin, M.; Ruffa, M.; Saccardin, C.; Minorello, C.; Zavagnin, P.; Lettini, A. A.; Olsen, John Elmerdahl; Ricci, A.

In: Zoonoses and Public Health, Vol. 59, No. 7, 2012, p. 505-512.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Barco, L, Mancin, M, Ruffa, M, Saccardin, C, Minorello, C, Zavagnin, P, Lettini, AA, Olsen, JE & Ricci, A 2012, 'Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains', Zoonoses and Public Health, vol. 59, no. 7, pp. 505-512. https://doi.org/10.1111/j.1863-2378.2012.01487.x

APA

Barco, L., Mancin, M., Ruffa, M., Saccardin, C., Minorello, C., Zavagnin, P., ... Ricci, A. (2012). Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains. Zoonoses and Public Health, 59(7), 505-512. https://doi.org/10.1111/j.1863-2378.2012.01487.x

Vancouver

Barco L, Mancin M, Ruffa M, Saccardin C, Minorello C, Zavagnin P et al. Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains. Zoonoses and Public Health. 2012;59(7):505-512. https://doi.org/10.1111/j.1863-2378.2012.01487.x

Author

Barco, L. ; Mancin, M. ; Ruffa, M. ; Saccardin, C. ; Minorello, C. ; Zavagnin, P. ; Lettini, A. A. ; Olsen, John Elmerdahl ; Ricci, A. / Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains. In: Zoonoses and Public Health. 2012 ; Vol. 59, No. 7. pp. 505-512.

Bibtex

@article{03203789af1747719cc9d5d824a883b7,
title = "Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains",
abstract = "Salmonella enterica 4,[5],12:i:- is a monophasic variant of S. Typhimurium. In the last decade, its prevalence rose sharply. Although S. 4,[5],12:i:- and S. Typhimurium are known to pose a considerable public health risk, there is no detailed information on the circulation of these serovars in Italy, particularly as far as veterinary isolates are concerned. For this reason, a data set of 877 strains isolated in the north-east of Italy from foodstuffs, animals and environment was analysed during 2005-2010. The Random Forests (RF) method was used to identify the most important epidemiological and phenotypic variables to show the difference between the two serovars. Both descriptive analysis and RF revealed that S. 4,[5],12:i:- is less heterogeneous than S. Typhimurium. RF highlighted that phage type was the most important variable to differentiate the two serovars. The most common phage types identified for S. 4,[5],12:i:- were DT20a, U311 and DT193. The same phage types were also found in S. Typhimurium isolates, although with a much lower prevalence. DT7 and DT120 were ascribed to the two serovars at comparable levels. DT104, DT2 and DT99 were ascribed exclusively to S. Typhimurium, and almost all the other phage types identified were more related to the latter serovar. Such data confirm that phage typing can provide an indication of the biphasic or monophasic state of the strains investigated and could therefore support serotyping results. However, phage typing cannot be used as the definitive method to differentiate the two serovars, as part of the phage types were detected for both serovars and, in particular, all phage types found for S. 4,[5],12:i- were found also for S. Typhimurium.",
keywords = "LIFE, Salmonella, Typhimurium, phage typing, random forest",
author = "L. Barco and M. Mancin and M. Ruffa and C. Saccardin and C. Minorello and P. Zavagnin and Lettini, {A. A.} and Olsen, {John Elmerdahl} and A. Ricci",
note = "{\circledC} 2012 Blackwell Verlag GmbH.",
year = "2012",
doi = "10.1111/j.1863-2378.2012.01487.x",
language = "English",
volume = "59",
pages = "505--512",
journal = "Zoonoses and Public Health",
issn = "1863-1959",
publisher = "Wiley-Blackwell",
number = "7",

}

RIS

TY - JOUR

T1 - Application of the Random Forest method to analyse epidemiological and phenotypic characteristics of Salmonella 4,[5],12:i:- and Salmonella Typhimurium strains

AU - Barco, L.

AU - Mancin, M.

AU - Ruffa, M.

AU - Saccardin, C.

AU - Minorello, C.

AU - Zavagnin, P.

AU - Lettini, A. A.

AU - Olsen, John Elmerdahl

AU - Ricci, A.

N1 - © 2012 Blackwell Verlag GmbH.

PY - 2012

Y1 - 2012

N2 - Salmonella enterica 4,[5],12:i:- is a monophasic variant of S. Typhimurium. In the last decade, its prevalence rose sharply. Although S. 4,[5],12:i:- and S. Typhimurium are known to pose a considerable public health risk, there is no detailed information on the circulation of these serovars in Italy, particularly as far as veterinary isolates are concerned. For this reason, a data set of 877 strains isolated in the north-east of Italy from foodstuffs, animals and environment was analysed during 2005-2010. The Random Forests (RF) method was used to identify the most important epidemiological and phenotypic variables to show the difference between the two serovars. Both descriptive analysis and RF revealed that S. 4,[5],12:i:- is less heterogeneous than S. Typhimurium. RF highlighted that phage type was the most important variable to differentiate the two serovars. The most common phage types identified for S. 4,[5],12:i:- were DT20a, U311 and DT193. The same phage types were also found in S. Typhimurium isolates, although with a much lower prevalence. DT7 and DT120 were ascribed to the two serovars at comparable levels. DT104, DT2 and DT99 were ascribed exclusively to S. Typhimurium, and almost all the other phage types identified were more related to the latter serovar. Such data confirm that phage typing can provide an indication of the biphasic or monophasic state of the strains investigated and could therefore support serotyping results. However, phage typing cannot be used as the definitive method to differentiate the two serovars, as part of the phage types were detected for both serovars and, in particular, all phage types found for S. 4,[5],12:i- were found also for S. Typhimurium.

AB - Salmonella enterica 4,[5],12:i:- is a monophasic variant of S. Typhimurium. In the last decade, its prevalence rose sharply. Although S. 4,[5],12:i:- and S. Typhimurium are known to pose a considerable public health risk, there is no detailed information on the circulation of these serovars in Italy, particularly as far as veterinary isolates are concerned. For this reason, a data set of 877 strains isolated in the north-east of Italy from foodstuffs, animals and environment was analysed during 2005-2010. The Random Forests (RF) method was used to identify the most important epidemiological and phenotypic variables to show the difference between the two serovars. Both descriptive analysis and RF revealed that S. 4,[5],12:i:- is less heterogeneous than S. Typhimurium. RF highlighted that phage type was the most important variable to differentiate the two serovars. The most common phage types identified for S. 4,[5],12:i:- were DT20a, U311 and DT193. The same phage types were also found in S. Typhimurium isolates, although with a much lower prevalence. DT7 and DT120 were ascribed to the two serovars at comparable levels. DT104, DT2 and DT99 were ascribed exclusively to S. Typhimurium, and almost all the other phage types identified were more related to the latter serovar. Such data confirm that phage typing can provide an indication of the biphasic or monophasic state of the strains investigated and could therefore support serotyping results. However, phage typing cannot be used as the definitive method to differentiate the two serovars, as part of the phage types were detected for both serovars and, in particular, all phage types found for S. 4,[5],12:i- were found also for S. Typhimurium.

KW - LIFE

KW - Salmonella

KW - Typhimurium

KW - phage typing

KW - random forest

U2 - 10.1111/j.1863-2378.2012.01487.x

DO - 10.1111/j.1863-2378.2012.01487.x

M3 - Journal article

VL - 59

SP - 505

EP - 512

JO - Zoonoses and Public Health

JF - Zoonoses and Public Health

SN - 1863-1959

IS - 7

ER -

ID: 38171859