Abbreviation	Definition
3D	Tertiary
AMOVA	Analysis of molecular variance
AR	Allelic richness
BIC	Bayesian information criterion
dN	The average rates of nonsynonymous
DNA	Deoxyribonucleic acid
DOC	Degree of Change
dS	The average rates of synonymous
EDTA	Ethylenediaminetetraacetic acid
FEL	Fixed effects likelihood
FUBAR	Fast unconstrained Bayesian approximation
ITIM	Immunoreceptor Tyrosine-based Inhibition Motif
iTOL	Interactive Tree of Life
LRT	Likelihood ratio test
MCMC	Markov Chain Monte Carlo
MDV	Marek’s disease virus
MEME	Mixed effects model of evolution
MHC	Major histocompatibility complex
Na	Number of alleles
NGS	Next-generation sequencing
PCoA	Principal coordinate analysis
PCR	Polymerase chain reaction
RJF	Red Junglefowl
SCBP	Siam Chicken Bioresource Project
SNPs	Single Nucleotide Polymorphisms
WGS	Whole-genome sequencing