The nutrient composition of feed plays a crucial role in regulating gene expression in animals,thereby affecting growth, metabolism, and immune functions. In poultry, the optimized use offeed additives such as crude protein and phytase can enhance nutrient absorption, improvefeed efficiency, and reduce environmental waste. In this study, we investigated the transcriptomic changes in the blood of forty-eight one-week-old broiler chickens fed diets differing in crude protein and phytase content. Using RNA sequencing and bioinformatic analysis, a total of 44 differentially expressed genes were identified in response to dietary variation. These genes were primarily involved in immune response, regulation of cell morphology, glycolytic process, and glycerolipid metabolism. Functional enrichment analysis revealed significant associations with cytokine–cytokine receptor interaction pathways, which regulate lipid metabolism, cellular proliferation, differentiation, and inflammatory responses. Moreover, decreased levels of crude protein and phytase were linked to alterations in protein autophosphorylation, amino acid biosynthesis, and energy metabolism pathways. These findings indicate that dietary modulation of crude protein and phytase levels can significantly influence metabolic and immune regulatory mechanisms in early-stage broilers. The appropriate feeding of feed additives (such as crude protein and phytase) not only improves nutritional deficiencies and feed efficiency issues in livestock, but also contributes to sustainable meat production, includ-ing the reduction of nitrogen and ammonia emissions, thereby supporting environmentallyresponsible poultry production.

Until now microsatellite (MS) have been a popular choice of markers for parentage verification. Recently many countries have moved or are in process of moving from MS markers to single nucleotide polymorphism (SNP) markers for parentage testing. FAO-ISAG has also come up with a panel of 200 SNPs to replace the use of MS markers in parentage verification. However, in many countries most of the animals were genotyped by MS markers till now and the sudden shift to SNP markers will render the data of those animals useless. As National Institute of Animal Science in South Korea plans to move from standard ISAG recommended MS markers to SNPs, it faces the dilemma of exclusion of old animals that were genotyped by MS markers. Thus to facilitate this shift from MS to SNPs, such that the existing animals with MS data could still be used for parentage verification, this study was performed. In the current study we performed imputation of MS markers from the SNPs in the 500-kb region of the MS marker on either side. This method will provide an easy option for the labs to combine the data from the old and the current set of animals. It will be a cost efficient replacement of genotyping with the additional markers. We used 1,480 Hanwoo animals with both the MS data and SNP data to impute in the validation animals. We also compared the imputation accuracy between BovineSNP50 and BovineHD BeadChip. In our study the genotype concordance of 40% and 43% was observed in the BovineSNP50 and BovineHD BeadChip respectively.
Animals ; Cattle ; Genotype ; Korea* ; Methods ; Microsatellite Repeats* ; Polymorphism, Single Nucleotide

Linkage disequilibrium (LD) is the non-random association between the loci and it could give us a preliminary insight into the genetic history of the population. In the present study LD patterns and effective population size (Ne) of three Korean cattle breeds along with Chinese, Japanese and Mongolian cattle were compared using the bovine Illumina SNP50 panel. The effective population size (Ne) is the number of breeding individuals in a population and is particularly important as it determines the rate at which genetic variation is lost. The genotype data in our study comprised a total of 129 samples, varying from 4 to 39 samples. After quality control there were ~29,000 single nucleotide polymorphisms (SNPs) for which r² value was calculated. Average distance between SNP pairs was 1.14 Mb across all breeds. Average r² between adjacent SNP pairs ranged between was 0.1 for Yanbian to 0.3 for Qinchuan. Effective population size of the breeds based on r² varied from 16 in Hainan to 226 in Yanbian. Amongst the Korean native breeds effective population size of Brindle Hanwoo was the least with Ne = 59 and Brown Hanwoo was the highest with Ne = 83. The effective population size of the Korean cattle breeds has been decreasing alarmingly over the past generations. We suggest appropriate measures to be taken to prevent these local breeds in their native tracts.
Animals ; Asian Continental Ancestry Group ; Breeding ; Cattle* ; Family Characteristics ; Genetic Variation ; Genotype ; Humans ; Korea ; Linkage Disequilibrium ; Polymorphism, Single Nucleotide ; Population Density ; Quality Control