Abstract

Salmonella strains are traditionally classified into serovars based on their surface antigens. While increasing availability of whole-genome sequences has allowed for more detailed subtyping of strains, links between genotype, serovar, and host remain elusive. Here we reconstruct genome-scale metabolic models for 410 Salmonella strains spanning 64 serovars. Model-predicted growth capabilities in over 530 different environments demonstrate that: (1) the Salmonella accessory metabolic network includes alternative carbon metabolism, and cell wall biosynthesis; (2) metabolic capabilities correspond to each strain’s serovar and isolation host; (3) growth predictions agree with 83.1% of experimental outcomes for 12 strains (690 out of 858); (4) 27 strains are auxotrophic for at least one compound, including l-tryptophan, niacin, l-histidine, l-cysteine, and p-aminobenzoate; and (5) the catabolic pathways that are important for fitness in the gastrointestinal environment are lost amongst extraintestinal serovars. Our results reveal growth differences that may reflect adaptation to particular colonization sites.

Details

Title
Genome-scale metabolic reconstructions of multiple Salmonella strains reveal serovar-specific metabolic traits
Author
Seif, Yara 1 ; Kavvas, Erol 1   VIAFID ORCID Logo  ; Lachance, Jean-Christophe 2 ; Yurkovich, James T 3   VIAFID ORCID Logo  ; Sean-Paul Nuccio 4 ; Fang, Xin 1 ; Catoiu, Edward 1 ; Raffatellu, Manuela 4   VIAFID ORCID Logo  ; Palsson, Bernhard O 5 ; Monk, Jonathan M 1 

1  Department of Bioengineering, University of California, San Diego, La Jolla, USA 
2  Département de Biologie, Université de Sherbrooke, Sherbrooke, QC, Canada 
3  Department of Bioengineering, University of California, San Diego, La Jolla, USA; Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, USA 
4  Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA 
5  Department of Bioengineering, University of California, San Diego, La Jolla, USA; Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, USA; Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA; Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kongens, Lyngby, Denmark 
Pages
1-12
Publication year
2018
Publication date
Sep 2018
Publisher
Nature Publishing Group
e-ISSN
20411723
Source type
Scholarly Journal
Language of publication
English
DOI
https://doi.org/10.1038/s41467-018-06112-5
ProQuest document ID
2104154361
Copyright
© 2018. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.