Abstract
ObjectiveThis study was undertaken to investigate the genetic characteristics of Berkshire (BS), Landrace (LR), and Yorkshire (YS) pig breeds raised in the Great Grandparents pig farms using the single nucleotide polymorphisms (SNP) information.MethodsA total of 25,921 common SNP genotype markers in three pig breeds were used to estimate the expected heterozygosity (HE), polymorphism information content, F-statistics (FST), linkage disequilibrium (LD) and effective population size (Ne).ResultsThe chromosome-wise distribution of FST in BS, LR, and YS populations were within the range of 0–0.36, and the average FST value was estimated to be 0.07±0.06. This result indicated some level of genetic segregation. An average LD (r2) for the BS, LR, and YS breeds was estimated to be approximately 0.41. This study also found an average Ne of 19.9 (BS), 31.4 (LR), and 34.1 (YS) over the last 5th generations. The effective population size for the BS, LR, and YS breeds decreased at a consistent rate from 50th to 10th generations ago. With a relatively faster Ne decline rate in the past 10th generations, there exists possible evidence for intensive selection practices in pigs in the recent past.ConclusionTo develop customized chips for the genomic selection of various breeds, it is important to select and utilize SNP based on the genetic characteristics of each breed. Since the improvement efficiency of breed pigs increases sharply by the population size, it is important to increase test units for the improvement and it is desirable to establish the pig improvement network system to expand the unit of breed pig improvement through the genetic connection among breed pig farms.
Highlights
ResultsThe chromosome-wise distribution of FST in BS, LR, and YS populations were within the range of 0-0.36, and the average FST cated some level of genetic segregation
An investigation of the genetic architecture is the first important step towards genomic selection for the improvement of pig breeds
The F-statistics were used for comparing the genetic characteristics among the race, and Yorkshire pig breeds raised in the great grandparent (GGP) farms using11t1h16e6SNP information
Summary
The chromosome-wise distribution of FST in BS, LR, and YS populations were within the range of 0-0.36, and the average FST cated some level of genetic segregation. Value was estimated to An average LD (r2) for be 0.07±0.06. This the BS, LR, and YS result indi breeds was estimated to be approximately 0.41. This study found an average Ne of 19.9 (BS), 31.4 (LR), and 34.1 (YS) over the last 5th generations. The effective population size for the BS, LR, and YS breeds decreased at a consistent rate from 50th to 10th generations ago. With a relatively faster Ne decline rate in the past 10th generations, there exists possible evidence for intensive selection practices in pigs in the recent past
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