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Genome-wide Association Studies-GWAS

Genome-wide Association Studies-GWAS

Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...

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Related Experiment Video

Updated: Jul 15, 2025

Noninvasive, In-pen Approach Test for Laboratory-housed Pigs

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Comprehensive Genome and Transcriptome Analysis Identifies SLCO3A1 Associated with Aggressive Behavior in Pigs.

Chunlei Zhang¹, Huan Yang¹, Qinglei Xu¹

¹College of Animal Science and Technology, Nanjing Agricultural University, Nanjing 210095, China.

|September 28, 2023

Summary

Copy number variations (CNVs) in pigs are linked to aggressive behavior. The Solute Carrier Organic Anion Transporter Family Member 3A1 (SLCO3A1) gene

Keywords:

CNV SLCO3A1 aggressive behavior animal welfare dosage effect

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Last Updated: Jul 15, 2025

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A Pipeline using Bilateral In Utero Electroporation to Interrogate Genetic Influences on Rodent Behavior

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Published on: May 21, 2020

Area of Science:

Genomics
Animal Genetics
Behavioral Genetics

Background:

Copy number variation (CNV) is a source of genetic diversity linked to livestock traits.
Aggressive behavior in pigs negatively impacts production, immunity, and meat quality.
The role of CNV in pig aggression is not well understood.

Purpose of the Study:

To investigate the relationship between CNV, gene expression, and aggressive behavior in weaned pigs.
To identify specific CNVs associated with aggressive traits.
To explore the potential role of the SLCO3A1 gene in pig aggression.

Main Methods:

Integrated analysis of genome and transcriptome data from most aggressive pigs (MAP) and least aggressive pigs (LAP).
Next-generation sequencing to identify copy number variation regions (CNVRs).
Genome-wide association study (GWAS) and expression quantitative trait loci (eQTL) analysis.

Main Results:

6869 CNVRs were identified.
CNVR-4962, located within the SLCO3A1 gene, was significantly associated with aggression.
MAP pigs had a higher copy number of SLCO3A1, correlating positively with aggressive scores.
SLCO3A1 mRNA expression in the temporal lobe was consistent with copy number variations.

Conclusions:

CNVs impacting SLCO3A1 may influence gene expression via a dosage effect.
SLCO3A1 is a potential candidate gene for aggressive traits in pig breeding programs.
This study provides insights into the genetic underpinnings of pig aggression.