Genetic dissection of 26 meat cut, meat quality and carcass traits in four pig populations.

BACKGROUND: Currently, meat cut traits are integrated in pig breeding objectives to gain extra profit. However, little is known about the heritability of meat cut proportions (MCP) and their correlations with other traits. The aims of this study were to assess the heritability and genetic correlation of MCP with carcass and meat quality traits using single nucleotide polymorphism chips and conduct a genome-wide association study (GWAS) to identify candidate genes for MCP. RESULTS: Seventeen MCP, 12 carcass, and seven meat quality traits were measured in 2012 pigs from four populations (Landrace; Yorkshire; Landrace and Yorkshire hybrid pigs; Duroc, and Landrace and Yorkshire hybrid pigs). Estimates of the heritability for MCP ranged from 0.10 to 0.55, with most estimates being moderate to high and highly consistent across populations. In the combined population, the heritability estimates for the proportions of scapula bone, loin, back fat, leg bones, and boneless picnic shoulder were 0.44 ± 0.04, 0.36 ± 0.04, 0.44 ± 0.04, 0.38 ± 0.04, and 0.39 ± 0.04, respectively. Proportion of middle cuts was genetically significantly positively correlated with intramuscular fat content and backfat depth. Proportion of ribs was genetically positively correlated with carcass oblique length and straight length (0.35 ± 0.08 to 0.45 ± 0.07) and negatively correlated with backfat depth (- 0.26 ± 0.10 to - 0.45 ± 0.10). However, weak or nonsignificant genetic correlations were observed between most MCP, indicating their independence. Twenty-eight quantitative trait loci (QTL) for MCP were detected by GWAS, and 24 new candidate genes related to MCP were identified, which are involved with growth, height, and skeletal development. Most importantly, we found that the development of the bones in different parts of the body may be regulated by different genes, among which HMGA1 may be the strongest candidate gene affecting forelimb bone development. Moreover, as previously shown, VRTN is a causal gene affecting vertebra number, and BMP2 may be the strongest candidate gene affecting hindlimb bone development. CONCLUSIONS: Our results indicate that breeding programs for MCP have the potential to enhance carcass composition by increasing the proportion of expensive cuts and decreasing the proportion of inexpensive cuts. Since MCP are post-slaughter traits, the QTL and candidate genes related to these traits can be used for marker-assisted and genomic selection.

Unveiling the Role of Defects on Oxygen Activation and Photodegradation of Organic Pollutants.

The status of defects of TiO2 are of fundamental importance in determining its physicochemical properties. Here we report a simple chemical deposition method for controllable synthesis of defective anatase TiO2 nanocrystals under various calcination atmospheres. XPS and ESR analysis reveals that both the oxygen vacancies ( VO) and the trivalent titanium (Ti3+) defects exist in TiO2 after N2 treatment (N-TiO2). Meanwhile, mainly VO defects can be obtained in TiO2 with air calcination (A-TiO2). ESR spectra for reactive oxygen species determination, clearly show that the visible light catalytic activity is mainly caused by the efficient activation of oxygen molecules to •O2- species for A-TiO2, which play an important role in hindering the accumulation of intermediates during p-chlorophenol (4-CP) photodegradation process. However, the oxygen molecules cannot be activated for N-TiO2 even with superior visible light absorption and thus the photogenerated electron are reductant, which participated in the transformation of BQ to HQ via electron shuttle mechanism. Moreover, A-TiO2 exhibits higher separation efficiency of photogenerated carriers than that of N-TiO2, showing the critical role of VO with a suitable concentration in transferring photogenerated charges.

Detection and management of coal seam outcrop fire in China: a case study.

The outcrop fire area in Rujigou Coal Mine in Ningxia, China has been burning continuously for over 100 years. This not only results in wastage of resources but also poses significant damage to the ecological environment. Previous research on open fire detection has mainly focused on coalfield fire areas, using single method such as infrared remote sensing or surface temperature measurement, magnetic method, electrical method, radon measurement and mercurimetry. However, the outcrop fire area has migrated to deeper parts over the years, conventional single fire zone detection methods are not capable of accurately detecting the extent of the fire zone, inversion interpretation is faced with the problem of many solutions. In fire management, current research focuses on the development of new materials, such as fly ash gel, sodium silicate gel, etc., However, it is often difficult to quickly extinguish outcrop fire areas with a single technique. Considering this status quo, unmanned aerial vehicle (UAV) infrared thermal imaging was employed to initially detect the scope of the outcrop fire area, and then both the spontaneous potential and directional drilling methods were adopted for further scope detection in pursuit of more accurate results. In addition, an applicable fire prevention and extinguishing system was constructed, in which three-phase foam was injected for the purpose of absorbing heat and cooling. Furthermore, the composite colloid was used to plug air leakage channels, and loess was backfilled to avoid re-combustion. The comprehensive detection and control technologies proposed in this study can be applied to eliminating the outcrop fire area and protecting the environment. This study can provide guidance and reference for the treatment of other outcrop fire areas.

Detection of Spontaneous Combustion Areas of Coal Gangue Dumps and Comprehensive Governance Technologies: A Case Study.

Spontaneous combustion of coal gangue dumps not only releases toxic and harmful gases, polluting the environment, but also leads to explosion accidents and casualties due to improper handling. This paper focuses on delineating the fire area, constructing a comprehensive fire prevention and extinguishing system, and restoring the ecological environment. Infrared thermal imaging was used to detect the shallow fire area, while intensive drilling was conducted to detect the deep fire area. The stability of the coal gangue dump was enhanced by perfusing three-phase foam for cooling and using a curing material to fill the cracks. Land reclamation was then performed to restore the ecological environment. The results indicate that spontaneous combustion of coal gangue dumps can trigger the spread of the fire area from the outside to the inside, gradually expanding due to the 'stack effect'. The sources of spontaneous combustion in gangue fire areas are mainly located 3-5 m below the flat surface, and the shallow and deep fire areas are interconnected, posing a significant danger. These research findings can serve as a reference for detecting fire areas in coal gangue dumps and controlling environmental pollution.

Genetic dissection and genomic prediction for pork cuts and carcass morphology traits in pig.

BACKGROUND: As pre-cut and pre-packaged chilled meat becomes increasingly popular, integrating the carcass-cutting process into the pig industry chain has become a trend. Identifying quantitative trait loci (QTLs) of pork cuts would facilitate the selection of pigs with a higher overall value. However, previous studies solely focused on evaluating the phenotypic and genetic parameters of pork cuts, neglecting the investigation of QTLs influencing these traits. This study involved 17 pork cuts and 12 morphology traits from 2,012 pigs across four populations genotyped using CC1 PorcineSNP50 BeadChips. Our aim was to identify QTLs and evaluate the accuracy of genomic estimated breed values (GEBVs) for pork cuts. RESULTS: We identified 14 QTLs and 112 QTLs for 17 pork cuts by GWAS using haplotype and imputation genotypes, respectively. Specifically, we found that HMGA1, VRTN and BMP2 were associated with body length and weight. Subsequent analysis revealed that HMGA1 primarily affects the size of fore leg bones, VRTN primarily affects the number of vertebrates, and BMP2 primarily affects the length of vertebrae and the size of hind leg bones. The prediction accuracy was defined as the correlation between the adjusted phenotype and GEBVs in the validation population, divided by the square root of the trait's heritability. The prediction accuracy of GEBVs for pork cuts varied from 0.342 to 0.693. Notably, ribs, boneless picnic shoulder, tenderloin, hind leg bones, and scapula bones exhibited prediction accuracies exceeding 0.600. Employing better models, increasing marker density through genotype imputation, and pre-selecting markers significantly improved the prediction accuracy of GEBVs. CONCLUSIONS: We performed the first study to dissect the genetic mechanism of pork cuts and identified a large number of significant QTLs and potential candidate genes. These findings carry significant implications for the breeding of pork cuts through marker-assisted and genomic selection. Additionally, we have constructed the first reference populations for genomic selection of pork cuts in pigs.

An imputed whole-genome sequence-based GWAS approach pinpoints causal mutations for complex traits in a specific swine population.

Sequencing-based genome-wide association studies (GWAS) have facilitated the identification of causal associations between genetic variants and traits in diverse species. However, it is cost-prohibitive for the majority of research groups to sequence a large number of samples. Here, we carried out genotype imputation to increase the density of single nucleotide polymorphisms in a large-scale Swine F2 population using a reference panel including 117 individuals, followed by a series of GWAS analyses. The imputation accuracies reached 0.89 and 0.86 for allelic concordance and correlation, respectively. A quantitative trait nucleotide (QTN) affecting the chest vertebrate was detected directly, while the investigation of another QTN affecting the residual glucose failed due to the presence of similar haplotypes carrying wild-type and mutant allelesin the reference panel used in this study. A high imputation accuracy was confirmed by Sanger sequencing technology for the most significant loci. Two candidate genes, CPNE5 and MYH3, affecting meat-related traits were proposed. Collectively, we illustrated four scenarios in imputation-based GWAS that may be encountered by researchers, and our results will provide an extensive reference for future genotype imputation-based GWAS analyses in the future.