Shotgun Metagenomic Diagnosis of Pathogens in Samgye Chickens

Six 35-day-old Samgye chicken carcasses were analyzed for disease diagnosis using histopathology, PCR, and bacterial culture. Pooled liver samples underwent shotgun metagenomic sequencing to identify microbial composition, virulence factors, and antimicrobial resistance genes. The data, shared by Yesong Kim under CC-BY-4.0, was last updated on 2026-05-29.

Use Cases

• Identify co-infections of immunosuppressive pathogens based on the described concurrent detection of CIAV, IBDV, Eimeria spp., and C. septicum.
• Analyze virulence factors in hepatic necrosis based on the detection of the α-toxin gene.
• Study antimicrobial resistance in poultry pathogens based on the detection of the tetA(P) gene.
• Compare diagnostic methods for poultry diseases based on the application of shotgun metagenomic sequencing versus traditional culture.

Strengths

• Data includes results from multiple diagnostic methods: histopathology, PCR, bacterial culture, and shotgun metagenomic sequencing.
• The dataset is the first report of concurrent CIAV, avIBDV, Eimeria spp., and C. septicum infection in Samgye chickens in South Korea.
• Specific virulence and antimicrobial resistance genes (α-toxin, tetA(P)) were identified.

Limitations

• Row count is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.
• The dataset is small in scale at 212.2 KB, indicating limited scope.

Provenance

Source

Yesong Kim via figshare

Collection Method

Shotgun metagenomic sequencing, histopathology, PCR, and bacterial culture performed on six chicken carcasses.

Freshness

Last updated 2026-05-29 10:59:17; freshness should be verified.

Geography

South Korea (Samgye chickens)