Genome-wide identification of quantitative trait loci in a cross between Hampshire and Landrace II: meat quality traits.

BACKGROUND: Meat quality traits are important in pig breeding programs, but they are difficult to include in a traditional selection program. Marker assisted selection (MAS) of meat quality traits is therefore of interest in breeding programs and a Quantitative Trait Locus (QTL) analysis is the key to identifying markers that can be used in MAS. In this study, Landrace and Hampshire intercross and backcross families were used to investigate meat quality traits. Hampshire pigs are commonly used as the sire line in commercial pig breeding. This is the first time a pedigree including Hampshire pigs has been used for a QTL analysis of meat quality traits. RESULTS: In total, we analyzed 39 meat quality traits and identified eight genome-wide significant QTL peaks in four regions: one on chromosome 3, two on chromosome 6 and one on chromosome 16. At least two of the QTLs do not appear to have been detected in previous studies. On chromosome 6 we identified QTLs for water content in M. longissimus dorsi (LD), drip loss in LD and post mortem pH decline in LD. On chromosomes 3 and 16 we identified previously undetected QTLs for protein content in LD and for freezing and cooking loss respectively. CONCLUSION: We identified at least two new meat quality trait QTLs at the genome-wide significance level. We detected two QTLs on chromosome 6 that possibly coincide with QTLs detected in other studies. We were also able to exclude the C1843T mutation in the ryanodine receptor (RYR1) as a causative mutation for one of the chromosome 6 QTLs in this cross.

A second mutant allele (V199I) at the PRKAG3 (RN) locus- I. Effect on technological meat quality of pork loin.

The effect of three alleles (RN(-), rn(+) and a second mutant allele V199I, denoted rn*) at the PRKAG3 (RN) locus on such meat quality traits as pH, internal reflectance (FOP), Warner-Bratzler shear force, water-holding capacity and cooking loss were studied. M. longissimus dorsi (LD) from a total of 334 crossbreed pigs, entire males and females, Hampshire (H) and Finnish Landrace (L) of three combinations H × LH, LH × H and LH × LH, were used. The PRKAG3 alleles were identified with a DNA test and all possible RN genotypes, RN(-)/RN(-) (23%), RN(-)/rn(+) (24%), RN(-)/rn* (33%), rn(+)/rn(+) (8%), rn(+)/rn* (9%) and rn*/rn* (2%), were found. Water, intramuscular fat, protein and glycogen contents were determined. All the three alleles at the RN locus affected the studied technological meat quality traits of pork loin, except for the internal reflectance 24 h post mortem and the shear force. The RN(-) allele was dominant over the other two alleles, rn(+) and rn*, in LD with regard to ultimate pH, water-holding capacity and cooking loss, giving lower ultimate pH and water-holding capacity and higher cooking loss. The rn* allele affected ultimate pH in LD of non-carriers of the RN(-) allele, giving higher ultimate pH. The RN(-) allele was also dominant over the other two alleles in residual glycogen content in entire male pigs, but not in female pigs, where the rn* allele had a glycogen-lowering effect. The water content was higher and the protein content lower in LD of all RN(-)/- animals compared with the other genotypes, while no significant differences were found with regard to IMF content. Water-holding capacity, cooking loss and shear force were higher in LD of entire males compared with females.

Sensory and meat quality traits of pork in relation to post-slaughter treatment and RN genotype.

The effects on eating quality and meat quality of two different forms of post-slaughter treatment, performed in an abattoir, were studied in carriers and non-carriers of the RN(-) allele. Carcasses were subjected to rapid and slow chilling, and pelvic and Achilles suspension in a factorial experimental design. A temperature of 10 °C was achieved in the centre of M. longissimus dorsi (LD) within 3.5 h in rapidly chilled carcasses and within 8 h in slowly chilled carcasses. In deep M. semimembranosus (SM) a temperature of 10 °C was achieved within 11.5 h in rapidly chilled carcasses and within 14 h in slowly chilled carcasses. LD from slowly chilled RN(-) carriers suspended by the pelvis exhibited the greatest tenderness, while LD from rapidly chilled non-carriers suspended from the Achilles tendon exhibited the lowest tenderness. Pelvic suspension or slow chilling of non-carriers produced the same improvement in tenderness, and when combined the tenderness increased further. However, the tenderness of the RN(-) carriers was already high, and no significant improvement was seen following any of the studied post-slaughter treatments. Pelvic suspension prevented shortening of muscle fibres, as seen by longer sarcomeres in LD from pelvic-suspended sides. However, longer sarcomeres were associated with greater tenderness only in LD from non-carriers of the RN(-) allele. The presence of the RN(-) allele and a slow chilling regime increased the rate of pH decline in LD. Achilles suspension also increased the rate of pH fall in SM, in addition to the RN(-) allele and slow chilling. The overall tenderness of LD was mainly related to the course of pH decline during rigor; lower pH values between 3 and 7 h post-mortem contributing to greater tenderness. The myofibrillar length was predominantly related to RN genotype and was shorter in RN(-) carriers than in non-carriers. The RN(-) allele and slow chilling contributed to higher evaporation losses and RN(-) carriers exhibited increased frequency of PSE meat in the ham muscles. The use of pelvic suspension appears advantageous over slower chilling, since it improved tenderness without any negative influence on drip loss, evaporation or cooking loss.

Sensory quality and the incidence of PSE of pork in relation to crossbreed and RN phenotype.

The effects of crossbreed and of RN phenotype on pork and its eating quality were evaluated in four different pig crossbreeds [involving Swedish Landrace (L) × Yorkshire (Y) sows and Hampshire (H), Duroc (D), Yorkshire (Y) or Hampshire × Yorkshire (HY) as the terminal sire]. Pigs from the LYH crossbreed were also classified as either carriers or non-carriers of the RN(-) allele. In the crossbreeds investigated, M. longissimus dorsi (LD) and M. semimembranosus (SM) from LYH were found to have the lowest pH as measured 24h post-mortem (pH(24h)). The low pH in the LYH crossbreed was due to the large proportion of RN(-) carriers it had (approximately 70%). The non-carriers of the RN(-) allele in the LYH crossbreed had a pH(24h) close to that of LYD, LYY and LYHY. In a selected group of pigs (N=50), the ultimate pH in the ham muscles M. biceps femoris (BF), M. quadriceps femoris (QF), M. gluteus medius (GM) and M. semitendinosus (ST) was also found to be lower in RN(-) carriers of LYH than in the other crossbreeds. As determined visually, LYD had the highest frequency (2%) of pale, soft and exudative meat (PSE), in LD. Ham from RN(-) carriers of LYH had the highest frequency (23%) of PSE meat around the femur, indicating that when the pH is low, the deep musculature, in which the chilling rate can be slow, is particularly sensitive to the development of PSE. According to assessments by members of a trained sensory panel, tenderness was significantly greater in LD from carriers of the RN(-) allele in LYH than in LD from LYD, LYHY and non-carriers of LYH. The tenderness of LD from LYY was rated as intermediate. The intramuscular fat content was found to be highest in LD from LYD, no relationship between intramuscular fat content and tenderness being found. The RN(-) carriers of LYH received the highest ratings in terms of juiciness. In conclusion, the sensory ratings demonstrated the great eating quality of LD from carriers of the RN(-) allele, indicating that abandoning the Hampshire crossbreed or eliminating the RN(-) allele from it, would result in the meat being less tender.

The influence of RN genotype, including the new V199I allele, on the eating quality of pork loin.

The eating quality of M. longissimus dorsi (LD) from RN(-) homozygotes, RN(-) heterozygotes and RN(-) non-carriers was investigated in a Swedish Hampshire×Finnish Landrace pig population. The recently identified new allele (V199I, here denoted rn*) at the RN locus was also detected among the pigs selected and included in the sensory evaluation. The number of animals varied from 10 to 15 in the five genotype groups; RN(-)/RN(-), RN(-)/rn+, RN(-)/rn*, rn+/rn+ and rn+/rn* (in total 59 pigs). In addition, one pig was determined to be rn*/rn* but was excluded from the analysis. The three genotypes in which the RN(-) allele was represented (RN(-)/RN(-), RN(-)/rn+ and RN(-)/rn*) had higher glycogen and lower protein contents as well as lower ultimate pH (measured 48 h post-mortem) in LD than the non-carriers (rn+/rn+ and rn+rn*). Of the sensory parameters evaluated (tenderness, chewing time, chewing residual, juiciness, meat flavour and acidity), the five RN genotypes only affected acidity significantly; the RN(-) allele contributing to a more acid taste in LD. The influence of the rn* allele resembled that of rn+ on the sensory parameters. When the material was divided into three groups (homozygous, heterozygous and non-carriers of the RN(-) allele) the juiciness was found to be significantly influenced by RN genotype, and LD from animals that were homozygous and heterozygous with respect to the RN(-) allele exhibited a higher juiciness than LD from non-carriers. The RN(-) allele also tended to contribute to greater tenderness, which was significantly higher in LD from heterozygous carriers than from non-carriers of the RN(-) allele. A more rapid decline in pH (measured as pH at 45 min and 3 h post-mortem) contributed to a greater tenderness in LD (according to a trained panel and Warner-Bratzler shear force). In addition to the RN genotype, the decline in pH was influenced by carcass weight, which varied between 71 and 97 kg, and by stunning procedure, which changed during the course of the study from individual to group stunning with CO(2). The individual stunning procedure contributed to a lower pH in the initial post-mortem phase (pH(45)), whereas a higher carcass weight and the RN(-) allele lowered the pH in the mid-post-mortem region (pH(3h) and pH(24h)), significantly (P⩽0.05). The pH continued to decline after 24 h post-mortem and the ultimate pH was not reached until 48 h post-mortem. The cooking loss, juiciness and acidity were related to the specific characteristics of the RN(-) carriers, such as higher glycogen content, lower protein content and lower ultimate pH (pH(48h)).