A Syst-OMICS approach to ensuring food safety and reducing the economic burden of salmonellosis

Jean Guillaume Emond-Rheault; Julie Jeukens; Luca Freschi; Irena Kukavica-Ibrulj; Brian Boyle; Marie Josée Dupont; Anna Colavecchio; Virginie Barrere; Brigitte Cadieux; Gitanjali Arya; Sadjia Bekal; Chrystal Berry; Elton Burnett; Camille Cavestri; Travis K. Chapin; Alanna Crouse; France Daigle; Michelle D. Danyluk; Pascal Delaquis; Ken Dewar; Florence Doualla-Bell; Ismail Fliss; Karen Fong; Eric Fournier; Eelco Franz; Rafael Garduno; Alexander Gill; Samantha Gruenheid; Linda Harris; Carol B. Huang; Hongsheng Huang; Roger Johnson; Yann Joly; Maud Kerhoas; Nguyet Kong; Gisèle Lapointe; Line Larivière; Stéphanie Loignon; Danielle Malo; Sylvain Moineau; Walid Mottawea; Kakali Mukhopadhyay; Céline Nadon; John Nash; Ida Ngueng Feze; Dele Ogunremi; Ann Perets; Ana V. Pilar; Aleisha R. Reimer; James Robertson; John Rohde; Kenneth E. Sanderson; Lingqiao Song; Roger Stephan; Sandeep Tamber; Paul Thomassin; Denise Tremblay; Valentine Usongo; Caroline Vincent; Siyun Wang; Joel T. Weadge; Martin Wiedmann; Lucas Wijnands; Emily D. Wilson; Thomas Wittum; Catherine Yoshida; Khadija Youfsi; Lei Zhu; Bart C. Weimer; Lawrence Goodridge; Roger C. Levesque

doi:10.3389/fmicb.2017.00996

A Syst-OMICS approach to ensuring food safety and reducing the economic burden of salmonellosis

Jean Guillaume Emond-Rheault, Julie Jeukens, Luca Freschi, Irena Kukavica-Ibrulj, Brian Boyle, Marie Josée Dupont, Anna Colavecchio, Virginie Barrere, Brigitte Cadieux, Gitanjali Arya, Sadjia Bekal, Chrystal Berry, Elton Burnett, Camille Cavestri, Travis K. Chapin, Alanna Crouse, France Daigle, Michelle D. Danyluk, Pascal Delaquis, Ken DewarFlorence Doualla-Bell, Ismail Fliss, Karen Fong, Eric Fournier, Eelco Franz, Rafael Garduno, Alexander Gill, Samantha Gruenheid, Linda Harris, Carol B. Huang, Hongsheng Huang, Roger Johnson, Yann Joly, Maud Kerhoas, Nguyet Kong, Gisèle Lapointe, Line Larivière, Stéphanie Loignon, Danielle Malo, Sylvain Moineau, Walid Mottawea, Kakali Mukhopadhyay, Céline Nadon, John Nash, Ida Ngueng Feze, Dele Ogunremi, Ann Perets, Ana V. Pilar, Aleisha R. Reimer, James Robertson, John Rohde, Kenneth E. Sanderson, Lingqiao Song, Roger Stephan, Sandeep Tamber, Paul Thomassin, Denise Tremblay, Valentine Usongo, Caroline Vincent, Siyun Wang, Joel T. Weadge, Martin Wiedmann, Lucas Wijnands, Emily D. Wilson, Thomas Wittum, Catherine Yoshida, Khadija Youfsi, Lei Zhu, Bart C. Weimer, Lawrence Goodridge, Roger C. Levesque

Medicine

Research output: Contribution to journal › Article › peer-review

33 Citations (Scopus)

Abstract

The Salmonella Syst-OMICS consortium is sequencing 4,500 Salmonella genomes and building an analysis pipeline for the study of Salmonella genome evolution, antibiotic resistance and virulence genes. Metadata, including phenotypic as well as genomic data, for isolates of the collection are provided through the Salmonella Foodborne Syst-OMICS database (SalFoS), at https://salfos.ibis.ulaval.ca/. Here, we present our strategy and the analysis of the first 3,377 genomes. Our data will be used to draw potential links between strains found in fresh produce, humans, animals and the environment. The ultimate goals are to understand how Salmonella evolves over time, improve the accuracy of diagnostic methods, develop control methods in the field, and identify prognostic markers for evidence-based decisions in epidemiology and surveillance.

Original language	English
Article number	996
Journal	Frontiers in Microbiology
Volume	8
Issue number	JUN
DOIs	https://doi.org/10.3389/fmicb.2017.00996
Publication status	Published - Jun 2 2017

Bibliographical note

Publisher Copyright:
© 2017 Emond-Rheault, Jeukens, Freschi, Kukavica-Ibrulj, Boyle, et al.

ASJC Scopus Subject Areas

Microbiology
Microbiology (medical)

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10.3389/fmicb.2017.00996

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Emond-Rheault, J. G., Jeukens, J., Freschi, L., Kukavica-Ibrulj, I., Boyle, B., Dupont, M. J., Colavecchio, A., Barrere, V., Cadieux, B., Arya, G., Bekal, S., Berry, C., Burnett, E., Cavestri, C., Chapin, T. K., Crouse, A., Daigle, F., Danyluk, M. D., Delaquis, P., ... Levesque, R. C. (2017). A Syst-OMICS approach to ensuring food safety and reducing the economic burden of salmonellosis. Frontiers in Microbiology, 8(JUN), Article 996. https://doi.org/10.3389/fmicb.2017.00996

Emond-Rheault, JG, Jeukens, J, Freschi, L, Kukavica-Ibrulj, I, Boyle, B, Dupont, MJ, Colavecchio, A, Barrere, V, Cadieux, B, Arya, G, Bekal, S, Berry, C, Burnett, E, Cavestri, C, Chapin, TK, Crouse, A, Daigle, F, Danyluk, MD, Delaquis, P, Dewar, K, Doualla-Bell, F, Fliss, I, Fong, K, Fournier, E, Franz, E, Garduno, R, Gill, A, Gruenheid, S, Harris, L, Huang, CB, Huang, H, Johnson, R, Joly, Y, Kerhoas, M, Kong, N, Lapointe, G, Larivière, L, Loignon, S, Malo, D, Moineau, S, Mottawea, W, Mukhopadhyay, K, Nadon, C, Nash, J, Feze, IN, Ogunremi, D, Perets, A, Pilar, AV, Reimer, AR, Robertson, J, Rohde, J, Sanderson, KE, Song, L, Stephan, R, Tamber, S, Thomassin, P, Tremblay, D, Usongo, V, Vincent, C, Wang, S, Weadge, JT, Wiedmann, M, Wijnands, L, Wilson, ED, Wittum, T, Yoshida, C, Youfsi, K, Zhu, L, Weimer, BC, Goodridge, L & Levesque, RC 2017, 'A Syst-OMICS approach to ensuring food safety and reducing the economic burden of salmonellosis', Frontiers in Microbiology, vol. 8, no. JUN, 996. https://doi.org/10.3389/fmicb.2017.00996

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title = "A Syst-OMICS approach to ensuring food safety and reducing the economic burden of salmonellosis",

abstract = "The Salmonella Syst-OMICS consortium is sequencing 4,500 Salmonella genomes and building an analysis pipeline for the study of Salmonella genome evolution, antibiotic resistance and virulence genes. Metadata, including phenotypic as well as genomic data, for isolates of the collection are provided through the Salmonella Foodborne Syst-OMICS database (SalFoS), at https://salfos.ibis.ulaval.ca/. Here, we present our strategy and the analysis of the first 3,377 genomes. Our data will be used to draw potential links between strains found in fresh produce, humans, animals and the environment. The ultimate goals are to understand how Salmonella evolves over time, improve the accuracy of diagnostic methods, develop control methods in the field, and identify prognostic markers for evidence-based decisions in epidemiology and surveillance.",

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AU - Emond-Rheault, Jean Guillaume

AU - Jeukens, Julie

AU - Freschi, Luca

AU - Kukavica-Ibrulj, Irena

AU - Boyle, Brian

AU - Dupont, Marie Josée

AU - Colavecchio, Anna

AU - Barrere, Virginie

AU - Cadieux, Brigitte

AU - Arya, Gitanjali

AU - Bekal, Sadjia

AU - Berry, Chrystal

AU - Burnett, Elton

AU - Cavestri, Camille

AU - Chapin, Travis K.

AU - Crouse, Alanna

AU - Daigle, France

AU - Danyluk, Michelle D.

AU - Delaquis, Pascal

AU - Dewar, Ken

AU - Doualla-Bell, Florence

AU - Fliss, Ismail

AU - Fong, Karen

AU - Fournier, Eric

AU - Franz, Eelco

AU - Garduno, Rafael

AU - Gill, Alexander

AU - Gruenheid, Samantha

AU - Harris, Linda

AU - Huang, Carol B.

AU - Huang, Hongsheng

AU - Johnson, Roger

AU - Joly, Yann

AU - Kerhoas, Maud

AU - Kong, Nguyet

AU - Lapointe, Gisèle

AU - Larivière, Line

AU - Loignon, Stéphanie

AU - Malo, Danielle

AU - Moineau, Sylvain

AU - Mottawea, Walid

AU - Mukhopadhyay, Kakali

AU - Nadon, Céline

AU - Nash, John

AU - Feze, Ida Ngueng

AU - Ogunremi, Dele

AU - Perets, Ann

AU - Pilar, Ana V.

AU - Reimer, Aleisha R.

AU - Robertson, James

AU - Rohde, John

AU - Sanderson, Kenneth E.

AU - Song, Lingqiao

AU - Stephan, Roger

AU - Tamber, Sandeep

AU - Thomassin, Paul

AU - Tremblay, Denise

AU - Usongo, Valentine

AU - Vincent, Caroline

AU - Wang, Siyun

AU - Weadge, Joel T.

AU - Wiedmann, Martin

AU - Wijnands, Lucas

AU - Wilson, Emily D.

AU - Wittum, Thomas

AU - Yoshida, Catherine

AU - Youfsi, Khadija

AU - Zhu, Lei

AU - Weimer, Bart C.

AU - Goodridge, Lawrence

AU - Levesque, Roger C.

PY - 2017/6/2

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A Syst-OMICS approach to ensuring food safety and reducing the economic burden of salmonellosis

Abstract

Bibliographical note

ASJC Scopus Subject Areas

Access to Document

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