scholarly journals Genetic characterization of the Mirgorod pig breed, obtained by analysis of single nucleotide polymorphisms of genes

2019 ◽  
Vol 6 (2) ◽  
pp. 47-57
Author(s):  
P. Vashchenko ◽  
V. Balatsky ◽  
K. Pocherniaev ◽  
V. Voloshchuk ◽  
V. Tsybenko ◽  
...  
Keyword(s):  
Allelic Diversity ◽  
Low Frequency ◽  
Stress Sensitivity ◽  
Nucleotide Polymorphisms ◽  
Muscle Area ◽  
Eye Muscle ◽  
Genetic Characteristics ◽  
Productive Traits ◽  
High Level ◽  
Genetic Anomaly

Aim. To determine genetic characteristics of the Mirgorod pig breed by analysis of 25 SNPs of 22 genes and to conduct the associative analysis of genes MC4R (SNP c.1426 G > A), LEP (SNP g.2845 А ˃ Т), GH (BsuRI- polymorphism), CTSF (SNP g. 22 G > C) with productive traits of animals. Methods. Blood samples of pedigree Mirgorod pigs, bred at SI «Experimental farm named after Decemberists», Poltava region, were used for the studies. DNA genotyping was performed by PCR-RFLP and TaqMan. Results. Specifi c features of the breed were determined in terms of gene allele frequencies, high level of genetic variability (He – 0.326) and allelic diversity (mean number of alleles per locus – 1.96). The KPL2/m allele that causes genetic anomaly of ISTS is absent among investigated Mirgorod pigs, and the recessive RYR1 g.1843T allele, responsible for stress sensitivity of pigs, occurs at a low frequency (0.04). Unlike other breeds, a relatively high frequency of the minor allele g.15A (0.16) of CTSK and polymorphism of the LEP gene (SNP g.3996 T > C) (He – 0.455) was observed. Statistically signifi cant associations of polymorphisms have been established: MC4R (SNP c.1426 G > A) with age of gaining 100 kg, the thickness of backfat and the Eye Muscle Area, GH/BsuRI with the age of gaining 100 kg, and CTSF (SNP g. 22G > C) with Eye Muscle Area. There was a trend of statistically signifi cant differences between groups of pigs with different genotypes of LEP (SNP g.2845 А ˃ Т) and the thickness of the backfat (p = 0.09). Conclusions. It is reasonable to carry out the restoration of the gene pool of the Mirgorod pig breed, taking into account the SNPs of the studied genes and their associations with the productive traits. It is expedient to give preference to pigs with SNP genotypes с.1426 MC4R GA, MC4R AA, g. 22 CTSF CC, g.2845 LEP TT for breed reproduction.

scholarly journals Genome-wide identification of major genes and genomic prediction using high-density and text-mined gene-based SNP panels in Hanwoo (Korean cattle)

PLoS ONE ◽  
2020 ◽  
Vol 15 (12) ◽  
pp. e0241848
Author(s):  
Hyo Jun Lee ◽  
Yoon Ji Chung ◽  
Sungbong Jang ◽  
Dong Won Seo ◽  
Hak Kyo Lee ◽  
...  
Keyword(s):  
Text Mining ◽  
Genomic Prediction ◽  
Causal Variant ◽  
Longissimus Dorsi ◽  
Nucleotide Polymorphisms ◽  
Muscle Area ◽  
Eye Muscle ◽  
Korean Cattle ◽  
Genome Wide ◽  
Snp Panels

It was hypothesized that single-nucleotide polymorphisms (SNPs) extracted from text-mined genes could be more tightly related to causal variant for each trait and that differentially weighting of this SNP panel in the GBLUP model could improve the performance of genomic prediction in cattle. Fitting two GRMs constructed by text-mined SNPs and SNPs except text-mined SNPs from 777k SNPs set (exp_777K) as different random effects showed better accuracy than fitting one GRM (Im_777K) for six traits (e.g. backfat thickness: + 0.002, eye muscle area: + 0.014, Warner–Bratzler Shear Force of semimembranosus and longissimus dorsi: + 0.024 and + 0.068, intramuscular fat content of semimembranosus and longissimus dorsi: + 0.008 and + 0.018). These results can suggest that attempts to incorporate text mining into genomic predictions seem valuable, and further study using text mining can be expected to present the significant results.

scholarly journals Estimation of Genetic Parameters by Single-Trait and Multi-Trait Models for Carcass Traits in Hanwoo Cattle

Animals ◽  
2019 ◽  
Vol 9 (12) ◽  
pp. 1061
Author(s):  
Swati Srivastava ◽  
Bryan Irvine Lopez ◽  
Sara de las Heras-Saldana ◽  
Jong-Eun Park ◽  
Dong-Hyun Shin ◽  
...  
Keyword(s):  
Genetic Parameters ◽  
Carcass Traits ◽  
Meat Production ◽  
Nucleotide Polymorphisms ◽  
Genomic Information ◽  
Marbling Score ◽  
Muscle Area ◽  
Eye Muscle ◽  
Hanwoo Cattle ◽  
Genomic Model

Hanwoo breed is preferred in South Korea because of the high standards in marbling and the palatability of its meat. Numerous studies have been conducted and are ongoing to increase the meat production and quality in this beef population. The aim of this study was to estimate and compare genetic parameters for carcass traits using BLUPF90 software. Four models were constructed, single trait pedigree model (STPM), single-trait genomic model (STGM), multi-trait pedigree model (MTPM), and multi-trait genomic model (MTGM), using the pedigree, phenotype, and genomic information of 7991 Hanwoo cattle. Four carcass traits were evaluated: Back fat thickness (BFT), carcass weight (CWT), eye muscle area (EMA), and marbling score (MS). Heritability estimates of 0.40 and 0.41 for BFT, 0.33 and 0.34 for CWT, 0.36 and 0.37 for EMA, and 0.35 and 0.38 for MS were obtained for the single-trait pedigree model and the multi-trait pedigree model, respectively, in Hanwoo. Further, the genomic model showed more improved results compared to the pedigree model, with heritability of 0.39 (CWT), 0.39 (EMA), and 0.46 (MS), except for 0.39 (BFT), which may be due to random events. Utilization of genomic information in the form of single nucleotide polymorphisms (SNPs) has allowed more capturing of the variance from the traits improving the variance components.

scholarly journals Fine mapping of porcine chromosome 6 QTL and LEPR effects on body composition in multiple generations of an Iberian by Landrace intercross

2005 ◽  
Vol 85 (1) ◽  
pp. 57-67 ◽  
Author(s):  
C. ÓVILO ◽  
A. FERNÁNDEZ ◽  
J. L. NOGUERA ◽  
C. BARRAGÁN ◽  
R. LETÓN ◽  
...  
Keyword(s):  
Body Composition ◽  
Leptin Receptor ◽  
Receptor Gene ◽  
Chromosome 6 ◽  
Nucleotide Polymorphisms ◽  
Fat Percentage ◽  
Muscle Area ◽  
Eye Muscle ◽  
Coding Regions ◽  
Narrow Region

The leptin receptor gene (LEPR) is a candidate for traits related to growth and body composition, and is located on SSC6 in a region where fatness and meat composition quantitative trait loci (QTL) have previously been detected in several F2 experimental designs. The aims of this work were: (i) to fine map these QTL on a larger sample of animals and generations (F3 and backcross) of an Iberian×Landrace intercross and (ii) to examine the effects of LEPR alleles on body composition traits. Eleven single nucleotide polymorphisms (SNPs) were detected by sequencing LEPR coding regions in Iberian and Landrace pig samples. Three missense polymorphisms were genotyped by pyrosequencing in 33 F0, 70 F1, 418 F2, 86 F3 and 128 individuals coming from the backcross of four F2 males with 24 Landrace females. Thirteen microsatellites and one SNP were also genotyped. Traits analysed were: backfat thickness at different locations (BFT), intramuscular fat percentage (IMFP), eye muscle area (EMA), loin depth (LOD), weight of shoulder (SHW), weight of ribs (RIBW) and weight of belly bacon (BBW). Different statistical models were applied in order to evaluate the number and effects of QTL on chromosome 6 and the possible causality of the LEPR gene variants with respect to the QTL. The results support the presence of two QTL on SSC6. One, at position 60–100 cM, affects BFT and RIBW. The other and more significant maps in a narrow region (130–132 cM) and affects BFT, IMFP, EMA, LOD, SHW, RIBW and BBW. Results also support the association between LEPR alleles and BFT traits. The possible functional implications of the analysed polymorphisms are considered.

scholarly journals A study on genetic diversity of bagrid catfish (Hemibagrus guttatus Lacepede, 1803) using microsatellite markers

2018 ◽  
Vol 16 (1) ◽  
pp. 59-65
Author(s):  
Bùi Hà My ◽  
Nguyễn Thị Hương ◽  
Nguyễn Hữu Đức ◽  
Trần Thị Thúy Hà
Keyword(s):  
Microsatellite Markers ◽  
Economic Value ◽  
Low Frequency ◽  
Wild Populations ◽  
Genetic Characteristics ◽  
Allele Number ◽  
Expected Heterozygosity ◽  
Artificial Breeding ◽  
The Mean ◽  
High Level

Bagrid catfish (Hemibagrus guttatus Lacepede, 1803) is a wild species of high economic value in Northern Vietnam. Artificial reproduction of bagrid catfish requires sources of quality fingerlings in terms of genetics. In fact, bagrid catfish is endangered due to overhunting. Until now, studying on bagrid catfish was mainly focused on biology characterictics and artificial breeding. In this study, three microsatellite markers were used to assess the genetic characteristics of four bagrid catfish populations (three wild populations collected in Tuyên Quang, Phu Tho, Ha Giang and a cultured population in Hai Duong). These markers were registed Genbwith the code of KJ873116, KJ873117 and NC 023976 for HM7, HM8 and SS1, respectively. All of the loci showed high level of polymorphism with 16 alleles in total which were 5 at locus HM7, 5 at locus HM8, and 6 at locus SS1. Total allele number in population collected in Ha Giang was higher than that of Tuyen Quang, Phu Tho and Hai Duong populations. The mean of number of observed alleles (Na = 3,83 ± 0,24) was higher than the mean number of effective alleles (Ne = 2,14 ± 0,13) and low frequency alleles (< 0,1) were observed in all loci. The value of the expected heterozygosity (He = 0,38- 0,63) was lower than that of the observed heterozygosity (Ho = 0,51-0,71). FIS value was low and the genetic differences between four populations was insignificant as FST < 0,05. The results provide useful information for breeding program and conservation of the bagrid catfish in the future.

Effects of maternal and post-weaned rumen-protected folic acid supplementation on slaughter performance and meat quality in the offspring lambs

2020 ◽  
pp. 1-28
Author(s):  
H.Q. Li ◽  
B. Wang ◽  
Z. Li ◽  
H.L. Luo ◽  
C. Zhang ◽  
...  
Keyword(s):  
Folic Acid ◽  
Gastrointestinal Tract ◽  
Meat Quality ◽  
Maternal Diet ◽  
Folic Acid Supplementation ◽  
The Body ◽  
Morphological Development ◽  
Muscle Area ◽  
Eye Muscle ◽  
Slaughter Performance

Abstract This study was undertaken to evaluate the influence of rumen-protected folic acid (RPFA) on slaughter performance, visceral organ and gastrointestinal tract coefficients, and meat quality in lambs. Sixty-six lambs from 120 Hu ewes were selected based on body weight and maternal diets, and then assigned to six groups using a randomized block experimental design in a 3 × 2 factorial arrangement. The first factor was folic acid (FA) as RPFA in the maternal diet (0 mg/kg [M0F], 16 mg/kg [M16F] or 32 mg/kg [M32F] on dry matter basis). The second factor was FA in the lambs’ diet from weaning until slaughter (0 mg/kg [OC] or 4.0 mg/kg [OF]). The results indicated that the addition of 16 mg/kg FA to the maternal diet increased pre-slaughter weight (PSW), dressing and meat percentage, the reticulum and omasum coefficients, length of the jejunum and ileum, tail fat and perirenal fat coefficient and a* value of the meat color. The addition of RPFA to the lambs’ diet increased PSW, dressing and meat percentage, eye muscle area, abomasum weight, weight and length of the small intestine, but reduced the coefficients of tail fat. A M×O interaction was observed for the weights of heart, lungs, rumen and total stomach, weight and coefficient of omental fat and the GR value. Collectively, RPFA in the maternal and lambs’ diet improved slaughter performance and meat quality by stimulating the morphological development of the gastrointestinal tract and the distribution of fat in the body.

scholarly journals Phylogeographic Investigation of an Endangered Longhorn Beetle, Callipogon relictus (Coleoptera: Cerambycidae), in Northeast Asia: Implications for Future Restoration in Korea

Insects ◽  
2021 ◽  
Vol 12 (6) ◽  
pp. 555
Author(s):  
Ji-Hyoun Kang ◽  
Dae-Am Yi ◽  
Alexander V. Kuprin ◽  
Chang-Do Han ◽  
Yeon-Jae Bae
Keyword(s):  
South Korea ◽  
Mitochondrial Gene ◽  
Northeast Asia ◽  
Haplotype Network ◽  
Conservation Strategies ◽  
Genetic Characteristics ◽  
Linear Pattern ◽  
Wide Range ◽  
Longhorn Beetle ◽  
High Level

The longhorn beetle, Callipogon (Eoxenus) relictus Semenov, is the only remnant species found in the Palearctic region, while all other Callipogon species are distributed mainly in Central America and partly in South America. This species has been placed in the first category (as ‘critically endangered’) of the Red Data Book in Russia and designated as one of the top-priority target species among all endangered invertebrate species for restoration in South Korea since 2006. Although its restricted distribution in Northeast Asia with a high conservational value has been highlighted, genetic features of C. relictus from different geographic regions remain unexplored. We first investigated the level of genetic diversity and phylogeographic patterns of C. relictus to evaluate the current conservational status and the feasibility of the implementation of a restoration program. The average genetic divergence of mitochondrial gene COI based on Kimura-2-parameter distance among the four regions in Russia, China, North Korea, and South Korea was 2.2%, which lies within the range of intraspecific levels. However, two separate clades with 3.8% divergence were identified, despite no geographical clustering of haplotypes. The linear pattern of the haplotype network with a high level of haplotype and nucleotide diversities suggests that the wide range of currently fragmented populations might be the remnant of genetically diverse populations in the past. This study will provide crucial information on the genetic characteristics and phylogeographic history of C. relictus, which will help to establish conservation strategies for this cherished insect species in Northeast Asia.

The area of eye muscle of beef cattle carcasses

1963 ◽  
Vol 3 (10) ◽  
pp. 249
Author(s):  
RM Seebeck
Keyword(s):  
Beef Cattle ◽  
Cross Sectional Area ◽  
Carcass Weight ◽  
Sectional Area ◽  
Muscle Area ◽  
Cross Sectional ◽  
Eye Muscle ◽  
Angus Cattle ◽  
The Cross

Variations in the cross-sectional area of eye muscle of carcasses cut between the tenth and eleventh ribs were investigated, using 105 Hereford and 51 Angus steers aged 20 months. These cattle consisted of three groups, born in successive years. At constant carcass weight, statistically significant differences in eye muscle area were found between breeds and between years. Breed and year differences were also found in eye muscle area with width and depth of eye muscle constant, so that there are limitations to the estimation of eye muscle area from width and depth measurements. A nomograph is given for estimating eye muscle area from width and depth for Hereford and Angus cattle, when all animals are reared in the same year and environment. The use of eye muscle area as an indicator of weight of carcass muscle is discussed.

Analysis of 4 Single-Nucleotide Polymorphisms in Relation to Cervical Dysplasia and Cancer Development Using a High-Throughput Ligation-Detection Reaction Procedure

2011 ◽  
Vol 21 (9) ◽  
pp. 1664-1671 ◽  
Author(s):  
Helmut von Keyserling ◽  
Thomas Bergmann ◽  
Miriam Schuetz ◽  
Ursula Schiller ◽  
Jonas Stanke ◽  
...  
Keyword(s):  
Cervical Cancer ◽  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Cervical Dysplasia ◽  
Semantic Integration ◽  
Cancer Development ◽  
Large Sample Size ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Genetic Characteristics

BackgroundHost genetic characteristics and environmental factors may correlate with risk for cervical cancer development. Here we describe a retrospective screening study for single nucleotide polymorphisms (SNPs) in genetic markersTP53, MTHFR, CYP1A1,andCYP2E1in 749 patients.MethodsA multiplex ligation-dependent polymerase chain reaction approach was applied. We used archived material from human papillomavirus tests and correlated SNP genotypes to the corresponding clinical data. Semantic integration was used to identify and evaluate the clinical status from electronic health records.ResultsAn association with cervical cancer and high-grade dysplasia was found for the rare homozygous CC genotype (rs4646903) inCYP1A1(odds ratio [OR], 8.862). Odds ratios were also significantly elevated for heterozygousMTHFRCT genotype (rs1801133; OR, 1.457). No significant association was found inTP53(rs1042522) andCYP2E1(rs3813867). In addition, we found smokers at higher risk (OR, 2.688) and identified pregnancies as a significant risk factor (OR, 1.54).ConclusionsOur protocol enables a feasible way for further retrospective large sample size evaluation of potential genetic markers. This study revealed genetic associations of a rare SNP genotype with cervical dysplasia in one of the largest patient sample to date that warrants further investigation.

scholarly journals Effect of heat stress on carcass and meat quality of indigenous sheep of Bangladesh

2014 ◽  
Vol 43 (2) ◽  
pp. 147-153 ◽  
Author(s):  
MS Rana ◽  
MA Hashem ◽  
S Akhter ◽  
M Habibullah ◽  
MH Islam ◽  
...  
Keyword(s):  
Heat Stress ◽  
Meat Quality ◽  
Carcass Characteristics ◽  
Muscle Area ◽  
Eye Muscle ◽  
Treatment Groups ◽  
Indigenous Sheep ◽  
Heat Treated ◽  
Significant Difference

The research was conducted to study the effect of heat stress on carcass characteristics and meat quality in indigenous sheep. Nine sheep were divided into three groups which were almost similar in age, sex and weight. Three groups were divided as zero hour (T0), four hours (T4) and eight hours (T8) heat exposure to direct sunlight. During experimental period temperature–humidity index (THI) value was calculated as 27.09 which indicated T4 and T8 groups were subjected to heat stress condition for at least four hours and eight hours respectively every day. Slaughter weight, body length and heart girth had no significant difference among the treatment groups. Dry matter, ash and ether extract had no significant difference (p>0.05) among the treatment groups but crude protein were increased with the increase of heat stress from T0 to T8 group (p<0.05). Drip loss was increased (p<0.05) in non-exposure group than treated groups but there is no significant result (p>0.05) found in pH and cooking loss. Carcass weight and eye muscle area had no significant difference (p>0.05) among the treatment groups but dressing percentage was decreased with the increase of time in heat treated groups (p<0.01). Significant difference (p<0.05) were found in weight of heart, kidney, lung + trachea and pluck between control and heat treated groups. The significant difference (p>0.05) in empty gut was found in gut with content and gut fill in heat treated groups. It can be concluded that heat stress had significant changes on carcass characteristics and meat quality of indigenous sheep.DOI: http://dx.doi.org/10.3329/bjas.v43i2.20717 Bang. J. Anim. Sci. 2014. 43 (2): 147-153

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