0478 Transcriptome analysis of the intestinal tissues of cattle suggests an association among host immune responses, lipid metabolism and the super-shedding of E. coli O157
Bibliographic record
Abstract
Super-shedder cattle, which are defined as cattle shedding > 4 log of CFU of Escherichia coli O157 (O157) per g of feces, are responsible for the majority of O157 excretion into the farm environment. Colonization of the rectal anal junction by O157 is integral to super shedding. The objective of current study was to further understand the molecular mechanisms of colonization during super-shedding through investigating the transcriptome of the whole intestinal tract of cattle. We hypothesized that the difference in gene expression profiles between the anterior and distal part of intestine underlies the tropism of O157 toward the distal colon, and that transcriptomes of intestinal tissues differ between super-shedders and steers fecal-negative for O157 (non-shedders). RNA-sequencing (Illumina HiSeq 2000, 100 bp paired-end) was performed for intestinal tissues, including duodenum, proximal jejunum, distal jejunum, cecum, spiral colon and descending colon collected from 5 super-shedders and 5 non-shedders. Sequencing data were processed using a Tophat2, HTseq and edgeR pipeline, and gene function analysis was performed using Ingenuity Pathway Analysis. The number of genes detected in tissues ranged from 16,846 ± 639 (cecum) to 18,137 ± 696 (distal jejunum), and the functional analysis indicated that cell-mediated and humoral immune functions were enriched for the transcriptomes of small intestinal tissues, reflecting their greater immune activity. The number of differentially expressed genes between super-shedders and non-shedders ranged from 1 (duodenum) to 248 (distal jejunum) (false discovery rate < 0.05). Up-regulated genes in super-shedders, including F3, GPR123 and CCR9 in distal jejunum, and GP2 and CD36 in descending colon, indicated possible increased activation of cell-mediated immune responses in these two intestinal regions of super-shedders. Up-regulated APOA1, GPAM, PLIN1 and APOB in descending colon of super-shedders suggested altered lipid metabolism. This is the first report of transcriptome analysis for intestinal tissues of cattle, and our current findings indicate that the tropism of O157 toward the distal part of the colon may be due to less active immune protection in the large intestine. Furthermore, both host immunity and lipid metabolism may play a role in the interaction between the cattle host and O157. The identified genes may be potential genetic indicators for O157 super-shedding in cattle.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.002 | 0.001 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".