Consumption of the total Western diet (TWD) in mice has been shown to increase gut inflammation, promote colon tumorigenesis, and alter the fecal microbiome composition in mice as com-pared to mice fed a healthy diet, AIN93G (AIN). However, it is unclear whether the gut micro-biome contributes directly to colitis-associated CRC in this model. The objective of this study was to determine whether dynamic fecal microbiota transfer (FMT) from host mice fed either AIN or TWD basal diets would alter colitis symptoms or colitis-associated CRC in recipient mice, which were fed either AIN or TWD directly using a 2x2 factorial experiment design. Time-matched FMT from donor mice fed TWD did not significantly enhance symptoms of colitis, colon epithelial inflammation, mucosal injury, or colon tumor burden in recipient mice fed AIN diet. Conversely, FMT from AIN-fed donors did not impart a protective effect for recipient mice fed the TWD. Likewise, the composition of the fecal microbiomes of recipient mice was also affected to a much greater extent by the diet they consumed as opposed to the source of FMT. In summary, FMT from mice fed either basal diet with differing colitis or tumor outcomes did not shift colitis symptoms or colon tumorigenesis in recipient mice, regardless of the basal diet they consumed. These observations suggest that the gut microbiome may not contribute directly to the development of disease in this animal model.

Author ORCID Identifier

Abby D. Benninghoff

Document Type




File Format


Publication Date



USDA, National Institute of Food and Agriculture (NIFA)

Utah Agricultural Experiment Station


Utah State University

Award Number

USDA, National Institute of Food and Agriculture (NIFA) 2018-67017-27516; Utah Agricultural Experiment Station UTA-01178 and UTA-04156

Award Title

Dietary Intervention with Black Raspberries to Promote Gut Homeostasis and Prevent Colitis-Associated Colorectal Cancer


The fecal microbiome was assessed by 16s rRNA sequencing prior to induction of colitis and tumorigenesis (pre-DSS), during active colitis (colitis), 14 days later during recovery from gut injury (recovery) at at the study end (terminal). Microbiota sequences were processed using QIIME 2 and DADA2. The DADA2 R package implements the full amplicon workflow (filtering, dereplication, chimera identification, merging paired end reads) and generates an amplicon sequence variant (ASV) table and representative sequences. To assign taxonomy, the QIIME feature-classifier classify-sklearn command was used with a classifier pre-trained for the V4 region, silva-138-99-515-806-nb-classifier.qza, and the most recent release of the Silva database (138 SSU). The resulting sequence count data are provided as ASV counts in .csv format, with the corresponding taxonomy and mapping files also in .csv format.



Code Lists



Animal Sciences | Veterinary Medicine


Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 License.




Additional Files

Benninghoff_Project N_ASV counts.csv (1853 kB)
MD5: bc1f54bb5b650d8576ca06d18873ea86

Benninghoff_Project N_Mapping.csv (11 kB)
MD5: bcd8014da409837d4fb44ab9ff32e3a8

Benninghoff_Project N_Taxonomy.csv (345 kB)
MD5: f32af295939f5189adcd187877805e9b

Readme.txt (6 kB)
MD5: f5d1fd41bf6a50e6868050f141f56592