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Genomic loci associated with antibody-mediated immune responses in an F2 chicken population

Published online by Cambridge University Press:  19 November 2018

V. Raeesi Open the ORCID record for V. Raeesi [Opens in a new window] ,
A. Ehsani  and
R.V. Torshizi
V. Raeesi
Affiliation:
Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran 14115–336, Iran
A. Ehsani*
Affiliation:
Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran 14115–336, Iran
R.V. Torshizi
Affiliation:
Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran 14115–336, Iran
*
†E-mail: alireza.ehsani@modares.ac.ir
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Abstract

Immunity-related traits are heritable in chicken, therefore, it is possible to improve the inherent immunity by breeding programs. In this study using the Illumina chicken 60K single nucleotide polymorphisms (SNPs) chip, we performed a set of genome-wide association studies to determine candidate genes and loci responsible for primary and secondary antibody-mediated responses against sheep red blood cell. A F2 population descended from a commercial meat-type breed and an Iranian indigenous chicken was used for this study. Statistical analysis was based on a mixed linear model utilizing genomic relationship matrix to prevent spurious associations. Correction for multiple testing was done by applying 5% and 10% chromosomal false discovery rates (FDRs) for significant and suggestive thresholds, respectively. Nine significant and 17 suggestive associated SNPs were identified. Most of the SNPs that were suggestively associated with the primary response of total plasma immunoglobulins were also significantly associated with this trait in secondary response. Three SNPs were located within a narrow region of 23 kb on chromosome 16. Pathway analysis for the genes surrounding the associated SNPs showed that they are involve in antigen processing and presentation, primary immunodeficiency, vitamin digestion and absorption, cell adhesion molecules, phagosome, influenza A, folding, assembly and peptide loading of class I major histocompatibility complex, lipid digestion, mobilization, and transport (FDR < 0.1). Interestingly, there were common regains associated with multiple immune-related traits.

Keywords

Broilerimmunoglobulingenome-wide association studymixed linear modelsingle nucleotide polymorphisms
Type
Research Article
Information
animal , Volume 13 , Issue 7 , July 2019 , pp. 1341 - 1349
Copyright
© The Animal Consortium 2018 

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