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Changes in the Porcine Intestinal Microbiome in Response to Infection with Salmonella Enterica and Lawsonia Intracellularis

genotype illustration

Salmonella enterica is a leading cause of food borne illness. Recent studies have shown that S. enterica is a pathogen capable of causing alterations to the composition of the intestinal microbiome. A recent prospective cross-sectional study of French pork production farms found a statistically significant association between Lawsonia intracellularis and carriage of S. enterica. In the current study the composition of the gut microbiome was determined in pigs challenged with S. enterica serovar Typhimurium and or L. intracellularis and compared to non-challenged control pigs. Principal coordinate analysis demonstrated that there was a disruption in the composition of the gut microbiome in the colon and cecum of pigs challenged with either pathogen. The compositions of the microbiomes of challenged pigs were similar to each other but differed from the non-challenged controls. There also were statistically significant increases in Anaerobacter, Barnesiella, Pediococcus, Sporacetigenium, Turicibacter, Catenibacterium, Prevotella, Pseudobutyrivibrio, and Xylanibacter in the challenged pigs. To determine if these changes were specific to experimentally challenged pigs, we determined the compositions of the fecal microbiomes of naturally infected pigs that were carriers of S. enterica. Pigs that were frequent shedders of S. enterica were shown to have similar fecal microbiomes compared to non-shedders or pigs that shed S. enterica infrequently. In a comparison of the differentially abundant bacteria in the naturally infected pigs compared to experimentally challenged pigs, 9 genera were differentially abundant and each exhibited the same increase or decrease in abundance between the two groups. Thus, there were similar changes in the GI microbiome associated with carriage of S. enterica regardless of whether the pigs were experimentally challenged with S. enterica or acquired it naturally.

The ZIP file includes 51 sequence files (FASTA format) and 1 Excel file describing the species, age, sampled tissue, treatment condition, and sample name corresponding to the different file names. The Excel file is converted to a csv for archival purposes. The Readme.txt file describes the context of how the data was created and any codes used in the spreadsheet.

Dataset Info

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FieldValue
Authors
Borewicz, Klaudyna
(ORCID)
Kim, Hyeun
Singer, Randall S.
(ORCID)
Gebhart, Connie J.
Sreevatsan, Srinand
(ORCID)
Johnson, Timothy J.
(ORCID)
Isaacson, Richard
(ORCID)
Product Type
Genome/Genetics Data
Temporal Coverage
5/2011
Publisher
University of Minnesota
Contact Name
Isaacson, Richard
Contact Email
Public Access Level
Public
Preferred Dataset Citation
Borewicz, Klaudyna; Kim, Hyeun; Singer, Randall; Gebhart, Connie; Sreevatsan, Srinand; Johnson, Timothy; Isaacson, Richard. (2015). Changes in the Porcine Intestinal Microbiome in Response to Infection with Salmonella Enterica and Lawsonia Intracellularis. Retrieved from the Data Repository for the University of Minnesota, http://dx.doi.org/10.13020/D69G69.
License
Funding Source(s)
University of Minnesota
U.S. Department of Agriculture
2007-35212-18046
Dataset DOI (digital object identifier)
10.13020/D69G69
Modified Date
2019-02-09
Release Date
2018-06-06
Ag Data Commons Keywords: 
  • Genomics & Genetics
  • Genomics & Genetics
  • Expression analysis
  • Genomics & Genetics
  • Expression analysis
  • RNA Seq
ISO Topic(s):