Document Type
Article
Publication Date
6-1-2023
Original Citation
Bello S,
Lawal R,
Adeola A,
Nie Q.
The study of selection signature and its applications on identification of candidate genes using whole genome sequencing data in chicken-a review. Poult Sci. 2023;102(6):102657
Keywords
JMG, Humans, Animals, Chickens, Haplotypes, Selection, Genetic, Homozygote, Whole Genome Sequencing, Polymorphism, Single Nucleotide
JAX Source
Poult Sci. 2023;102(6):102657
ISSN
1525-3171
PMID
37054499
DOI
https://doi.org/10.1016/j.psj.2023.102657
Grant
This work was sup- ported by the Science and Technology Program of Guangdong province, China (2020B1212060060), the Natural Scientific Foundation of China (U1901206), Local Innovative and Research Teams Project of Guang- dong Province (2019BT02N630), National Key R&D Program of China (2021YFD1300100), and China Agri- culture Research System (CARS-41-G03).
Abstract
Chicken is a major source of protein for the increasing human population and is useful for research purposes. There are almost 1,600 distinct regional breeds of chicken across the globe, among which a large body of genetic and phenotypic variations has been accumulated due to extensive natural and artificial selection. Moreover, natural selection is a crucial force for animal domestication. Several approaches have been adopted to detect selection signatures in different breeds of chicken using whole genome sequencing (WGS) data including integrated haplotype score (iHS), cross-populated extend haplotype homozygosity test (XP-EHH), fixation index (FST), cross-population composite likelihood ratio (XP-CLR), nucleotide diversity (Pi), and others. In addition, gene enrichment analyses are utilized to determine KEGG pathways and gene ontology (GO) terms related to traits of interest in chicken. Herein, we review different studies that have adopted diverse approaches to detect selection signatures in different breeds of chicken. This review systematically summarizes different findings on selection signatures and related candidate genes in chickens. Future studies could combine different selection signatures approaches to strengthen the quality of the results thereby providing more affirmative inference. This would further aid in deciphering the importance of selection in chicken conservation for the increasing human population.
Comments
This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/ 4.0/).