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Establishment of nucleus herds (NHs) of Native Pigs (NPs) at various R&D stations in the Philippines is currently being undertaken for food security and genetic conservation. Marker-assisted selection (MAS) is being utilized to identify individuals carrying favorable alleles of genes associated with production traits and screen-out genetic defects (GD) for breeding purposes. Porcine Stress Syndrome (PSS) caused by a mutation in Halothane (HAL) gene is a GD frequently found in commercial breeds that when expressed, causes pale, soft, exudative (PSE) meat. PSE is inferior quality meat undesirable in the market causing economic loss to the swine industry. Thus, this study was conducted to screen HAL gene using mutagenically separated-polymerase chain reaction (MS-PCR) in selected NP herds and assessed its repeatability in local breeds. Results showed that out of 577 screened individuals, 543 (94.11%) were normal (NN), 0 (0%) were homozygous mutant (nn) and 34 (5.89%) were heterozygous carriers (Nn). Therefore, the optimized PSS screening protocol using MSPCR is also applicable to local breed as described in the previous study. As such the availability of genetic test for PSS could be useful in improving the breeding selection and elimination of PSS mutant in the nucleus herd of Philippine Native Pig.

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