Single-Cell Transcriptomic Profiling of Chicken Immune Response to Salmonella Infection

Single-cell RNA sequencing data from 50 specific-pathogen free chickens, half challenged with Salmonella Enteritidis, collected at 2 and 6 days post-infection. The dataset was generated by Shuja Majeed and published on figshare in June 2026. It captures immune cell responses in the ileum, focusing on intraepithelial lymphocyte expansion and transcriptional changes.

Use Cases

• Analyzing innate-like cytotoxic T cell expansion based on scRNA-seq cluster identification described in the study
• Studying transcriptional reprogramming of CD8αβ+ T cells during Salmonella infection based on integrated flow cytometry and sequencing data
• Modeling T cell differentiation trajectories from progenitor to effector states using the inferred trajectory analysis mentioned
• Investigating the role of stem-like resident memory T cells as a reservoir for rapid immune response based on the findings

Strengths

• Data integrates spectral flow cytometry and single-cell RNA sequencing from a controlled challenge study with 50 birds
• Findings detail a specific immune response at two time points (2 and 6 days post-infection)
• Dataset is openly licensed under CC-BY-4.0 for reuse

Limitations

• Column-level documentation is absent; field semantics must be inferred after download
• Row count is unknown, which may limit suitability assessment
• The 54.5 KB file size suggests a limited scope, likely containing summary results rather than raw sequencing data

Provenance

Source

figshare

Collection Method

Combination of spectral flow cytometry and single-cell RNA sequencing (scRNA-seq) on ileal intraepithelial lymphocytes from Salmonella-challenged and control chickens.

Time Range

Samples collected at 2 and 6 days post-infection.

Freshness

Last updated 2026-06-03 04:49:24; freshness should be verified