scholarly journals Genetic structure of Antioquia Holstein from two SNPs and association with dairy traits

2015 ◽  
pp. 4974-4988
Author(s):  
Stephania Madrid G ◽  
Albeiro López H ◽  
Julián Echeverri Z
Keyword(s):  
Genetic Differentiation ◽  
Marker Assisted Selection ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Reproductive Traits ◽  
Phenotypic Selection ◽  
Milk Traits ◽  
Dairy Traits ◽  
Pcr Rflp ◽  
Hardy Weinberg Equilibrium

ABSTRACT Objective. Analyze the structure and genetic differentiation of a population of Antioquia Holstein cows from the polymorphisms A192G of INHA and A-320T of FSHR, and explore the association of the genotypic combinations with milk traits. Materials and methods. 1240 lactations of 356 animals from 9 herds in 6 municipalities of Antioquia were analyzed. Genotyping was performed by PCR-RFLP. Structure and genetic diversity parameters were determined using GenAlex software. The association of genotypes combinations with productive and reproductive traits was explored through a linear mixed model. Results. SNP A192G showed a frequency of 0.534 and 0.466 for A and G alleles respectively and SNP A-320T had a frequency of 0.660 far A allele and 0.339 for T allele, this way the population is in HWE. The FST, FIS and FIT values were 0.059, 0.285 and 0.328 respectively indicating a moderate genetic differentiation between subpopulations. The A-320T SNP showed significant effect on milk yield. Fat and protein percentage, calving interval and services per conception were not affected by these polymorphisms or their interaction. Conclusions. Phenotypic selection made on this population has not been strong enough to generate noticeable changes in allele frequencies of these polymorphisms or deviations from Hardy-Weinberg equilibrium. The interaction of these polymorphisms has no significant effect on the characteristics of zootechnical interest, so its use in programs of molecular marker assisted selection is not recommended.

scholarly journals Association of RBP4 Genotype with Phenotypic Reproductive Traits of Sows

2016 ◽  
Vol 2016 ◽  
pp. 1-5 ◽  
Author(s):  
A. Marantidis ◽  
G. P. Laliotis ◽  
M. Avdi
Keyword(s):  
Litter Size ◽  
Negative Impact ◽  
Reproductive Traits ◽  
Retinol Binding Protein ◽  
Rapid Improvement ◽  
Retinol Binding Protein 4 ◽  
Reproductive Characteristics ◽  
Pcr Rflp ◽  
Hardy Weinberg Equilibrium ◽  
Rbp4 Gene

PCR-RFLP was applied to a commercial crossbred pig population in order to investigate the association between polymorphism (SNP) of Retinol-binding protein 4 (RBP4) gene and reproductive performance. 400 sows were genotyped and 2000 records of reproductive traits were used in order to retrieve information about the allele frequencies and the association of the RBP4 gene with main reproductive characteristics of the population. A deviation from the Hardy-Weinberg equilibrium was observed as a result of the AB genotype excess. In addition, the AA genotype saw statistically significant higher values of (i) the total number of born piglets (p<0.05), (ii) the number of piglets born alive (p<0.01), and (iii) the number of weaned piglets (p<0.01). The number of the mummified piglets and the number of the piglets born dead did not differ between the various RBP4 genotypes. Interestingly, the AA genotype had a negative impact (p<0.05) on the number of piglets born dead, resulting indirectly in a larger litter size. In conclusion, the AA genotype and in extension the A allele of RBP4 gene are in favor of producing larger litter size, suggesting that the RBP4 gene may be used in Marker-Assisted Selection (MAS) programs for a rapid improvement of the reproductive characteristics in pigs.

scholarly journals Effect of β-lactoglobulin gene polymorphism, lactation stage and breed on milk traits in Chios and Karagouniko sheep breeds

2017 ◽  
Vol 17 (2) ◽  
pp. 371-384 ◽  
Author(s):  
Kostas A. Triantaphyllopoulos ◽  
Panagiota Koutsouli ◽  
Athanassios Kandris ◽  
Dimitris Papachristou ◽  
Kalliopi E. Markopoulou ◽  
...  
Keyword(s):  
Milk Yield ◽  
Milk Traits ◽  
Weinberg Equilibrium ◽  
Sheep Breeds ◽  
Lactation Stage ◽  
Pcr Rflp ◽  
Hardy Weinberg Equilibrium ◽  
Daily Milk Yield ◽  
Β Lactoglobulin ◽  
Daily Milk

Abstract The animal selection with favourable phenotypes of the past has been, currently, replaced by the genotype selection on quantitative traits, assisted by the expanding molecular techniques in the context of livestock improvement. In this study, the c.112T>C polymorphism in exon II of β-lactoglobulin (β-LG) gene was investigated in Karagouniko and Chios sheep breeds by using polymerase chain reaction - restriction fragment length polymorphism (PCR-RFLP), and possible associations with milk traits were examined. In total, 125 blood DNA samples were isolated for PCR-RFLP analysis and the respective 217 milk samples′ composition profile was obtained. The goodness of fit test to Hardy-Weinberg equilibrium (HWE) for β-LG genotypes was estimated and associations found between β-LG genotypes and raw milk composition. Two alleles and three genotypes were observed (AA, AB and BB) in both breeds, and Chios breed significantly deviated (P≤0.05) from Hardy-Weinberg equilibrium (HWE). Conclusively, linear mixed model analysis on samples, from both breeds collectively, showed significant effects of β-LG genotype on lactose percentage and somatic cell count (SCC), lactation stage on daily milk yield and protein, while the breed effect was significant only on daily milk yield.

scholarly journals Analysis of Genetic Parameters for Reproductive Traits in Crossbred Dairy Cattle Maintained at Holetta Agricultural Research Center.

2020 ◽  
Vol 39 (01) ◽  
Author(s):  
Kefale Getahun ◽  
Million Tadesse ◽  
Direba Hundie
Keyword(s):  
Dairy Cattle ◽  
Genetic Parameters ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Agricultural Research ◽  
Genetic Correlations ◽  
Reproductive Traits ◽  
Breeding Value ◽  
Research Center ◽  
Phenotypic Correlation

This study was aimed to generate information on variance components and the resulting genetic parameters (heritability, repeatability, genetic and phenotypic correlations and genetic trends) of some economic traits of Borena and its crosses with Holstein Friesian dairy cattle maintained at Holetta agricultural research center dairy farm. Traits studied were age at first service (AFS), age at first calving (AFC), calving interval (CI), days open (DO) and number of service per conception (NSC). Overall, 11331 dairy cattle reproductive performance records were used for the study. WOMBAT, which is a software package for quantitative genetic analysis of continuous traits, fitting a linear, mixed model; estimates of covariance components and the resulting genetic parameters were employed and obtained. Heritability values of reproductive traits were from very low (0.071, 0.082 and 0.012) for CI, DO and NSC to moderate (0.3 and 0.22) for AFC and AFS traits. Repeatability estimate for CI, DO and NSC were low (0.17, 0.17 and 0.129). Strong and positive genetic correlation (0.98) was appeared between AFS and AFC traits. Negative genetic correlations were observed between AFS and DO (-0.001), AFC and DO (-0.05), AFS and NSC (-0.022), AFC and NSC (-0.29) and CI and NSC (-0.31). AFS were negative phenotypic correlation with CI, DO and NSC. Similarly, AFC was negative phenotypic correlation with CI and DO. Low phenotypic correlation was observed between AFC and NSC, CI and DO, CI and NSC and, DO and NSC. Strong and positive phenotypic correlation was appeared between AFS and AFC. The regression coefficient of mean breeding value for NSC, CI, DO, AFC and AFS on year of birth were -0.0066x+13.25 times/year, -1.19x+2387.4 days/year, -1.23x+2445.6 days/year, 0.2x-410 months/year and 0.48x-980 months/year, respectively.

scholarly journals Association of SNP T125A on KiSS1 gene with reproduction hormone levels in Kaligesing goat

2020 ◽  
Vol 45 (4) ◽  
pp. 253-260
Author(s):  
G. Hardyta ◽  
D.T. Widayati ◽  
D. Maharani
Keyword(s):  
Luteal Phase ◽  
Reproductive Traits ◽  
Genotype Distribution ◽  
Single Nucleotide ◽  
Genotype Frequencies ◽  
Pcr Rflp ◽  
Hardy Weinberg Equilibrium ◽  
17Β Estradiol ◽  
Hormonal Analysis ◽  
Hormonal Levels

The objective of this study was to assess the association of KiSS1 gene polymorphism with reproductive traits in Kaligesing goat. Genotypes of 48 ewes aged three years old were determined using PCR-RFLP and DNA sequencing. Sixteen out of 48 samples were monitored for the estrus cycle and determined their 17β-estradiol and progesterone levels using ELISA method. The results showed that KISS1 gene in the studied population was polymorphic with one single nucleotide polymorphism (SNP T125A). Then SNP was used to analyze genotype all individuals by PCR-RFLP method using MboII enzyme. Three genotypes (TT, TA and AA) were identified. Genotype frequencies of TA were 59.57%, AA were 40.43% while TT was not inculed in calculation for genetic diversity and assosication analysis since the number of genotype only one goat. The allele frequencies of T and A were 29.79% and 70.21%, respectively. The genotype distribution for the SNP was deviated from Hardy-Weinberg equilibrium (χ2=8.10; P<0.025). Hormonal analysis showed that the levels of 17β-estradiol in the follicular and luteal phase were 50.12±61.26 and 42.35±42.43 pg/ml, respectively, while the levels of progesterone hormone in the follicular and luteal phase were 7.87±10.59 and 12.39±15.93 ng/ml. No significant associations of the polymorphism were observed for any hormonal levels. However, it was first report about polymorfism in KiSS1 gene of local Indonesian goat especially Kaligesing goat. 

scholarly journals Genetic association of variations in the kappa-casein and β-lactoglobulin genes with milk traits in girolando cattle

2019 ◽  
Vol 20 ◽  
Author(s):  
Severino Benone Paes Barbosa ◽  
Ítala Iara Medeiros de Araújo ◽  
Marta Fonseca Martins ◽  
Elizabete Cristina da Silva ◽  
Laís Aberrachid Jacopini ◽  
...  
Keyword(s):  
Milk Yield ◽  
Dairy Farm ◽  
Transmission Capacity ◽  
Farm Animals ◽  
Substitution Effects ◽  
Milk Traits ◽  
Pcr Rflp ◽  
Dairy Animals ◽  
Hardy Weinberg Equilibrium ◽  
Β Lactoglobulin

SUMMARY In dairy farm animals, one the most important goal of the selection is the improvement of milk yield and composition. Several studies have demonstrated that the candidate genes of the kappa-casein (CSN3) and β - lactoglobulin (β-LG) are associated with milk yield, milk quality and health traits in dairy animals. Therefore the aim of this study was to detect polymorphisms in CSN3 and β-LG genes and its association with milk yield in up to 305 days (305MY) and predicted transmission capacity (PTA) for 305MY in Girolando cattle. Totally, 138 bulls and 729 cows (n=867) were sampled. The genotypes of both genes were obtained by the PCR-RFLP method using HinfI and HaeIII enzymes for CSN3 and β-LG genes, respectively. Statistical results revealed two alleles A and B for both genes. The genotypes and alleles more frequents for CSN3 and β-LG genes were respectively: AA (0.7324) and A (0.8558), and AB (0.4827) and A (0.5017). The x2 test revealed that the two loci were at Hardy-Weinberg equilibrium (p<0.001). The allele substitution effects for the variants were not significant on 305MY and PTA for 305MY (p>0.05). The allele variants of β-LG and CSN3 might be more investigated before include them into future breeding schemes designed for Girolando dairy cattle with objective of improving milk traits as milk yield in up to 305 days (305MY) and predicted transmission capacity (PTA) for 305MY..

scholarly journals Relationship between longevity and selected production, reproduction and type traits

2011 ◽  
Vol 50 (No. 1) ◽  
pp. 1-6 ◽  
Author(s):  
P. Strapák ◽  
J. Candrák ◽  
J. Aumann
Keyword(s):  
Negative Correlation ◽  
Positive Relationship ◽  
Reproductive Traits ◽  
Milk Traits ◽  
Breeding Values ◽  
Positive Correlation ◽  
Dairy Traits ◽  
Type Traits ◽  
Estimated Breeding Values

The correlations between longevity, functional longevity, stayability and selected milk, reproductive and type traits were estimated; it was done on the basis of estimated breeding values for longevity, functional longevity, dairy traits, reproductive traits and stayability rates at the age of 60, 72, 84, and 96 months. The correlation between breeding values for longevity and functional longevity was 0.69. The correlations between longevity and stayability at 60, 72, 84, and 96 months of age were around 0.75 (from 0.73 to 0.76) whereas the correlation with stayability at 48 months was considerably lower (0.64). The breeding values for dairy traits showed a positive relationship with longevity (from 0.37 to 0.46) and a slightly negative correlation with breeding values for functional longevity (from &ndash;0.10 to &ndash;0.20). A low relationship was found between longevity and reproductive traits. Between the type traits and longevity traits only the conformation score for the form (0.18) and for the udder showed a positive correlation (0.24). The correlation between the form and functional longevity remained approximately on the same level whereas the correlation with the main udder score decreased to 0.08, which indicated a positive relationship between milk traits and udder scores. &nbsp;

scholarly journals Association and polymorphism study of seven candidate genes with reproductive traits in three pig breeds in Hungary.

2016 ◽  
Vol 63 (2) ◽  
Author(s):  
Ágnes Hunyadi-Bagi ◽  
Péter Balogh ◽  
Krisztina Nagy ◽  
Szilvia Kusza
Keyword(s):  
Growth Rate ◽  
Association Study ◽  
Significant Influence ◽  
Reproductive Traits ◽  
Large White ◽  
Pig Breeds ◽  
Pcr Rflp ◽  
Reproduction Traits ◽  
Hardy Weinberg Equilibrium ◽  
Selection For

Seven genes (BF, EGF, ESR, FSHB, H2AFZ, LEP and PRLP) were studied as candidate gene influencing eleven reproduction traits (interval between litters (IBL), percent of litter (PL), number of litters (NL), number of piglets born dead (NBD), number of piglet born alive (NBA), total number born (TNB), mean of born alive (MBA), mean of born dead (MBD), mean of born total (MBT), mean of piglets at 21 days of age (M21D) and growth rate (GR) in three pig breeds (Hungarian Large White (HLW), Duroc and Pietrain) by PCR-RFLP. Based on the observed vs. expected genotypes frequencies populations across loci were in Hardy-Weinberg equilibrium (P>0.05). In case HLW breed ESR and FSHβ genes were in disequilibrium. Association study suggested that only EGF gene showed significant influence on the trait NBA and TNB. The AA genotype are preferable for sows, associated with higher NBA and TNB. The longest IBL, and the highest NL is associated with AB and AA genotype of EGF gene. IBL is significantly shorter in case of pigs with AB and AA alleles than BB alleles of PRLP genes. Selection for these SNPs could improve the reproductivity in the studied breeds.

scholarly journals Phenotypic and genetic parameters of reproductive traits of black and white cows with different share of HF genes

2007 ◽  
Vol 23 (5-6-1) ◽  
pp. 193-199 ◽  
Author(s):  
M.M. Petrovic ◽  
S. Aleksic ◽  
T. Smiljakovic ◽  
V. Pantelic ◽  
D. Ostojic-Andric
Keyword(s):  
Genetic Parameters ◽  
Mixed Model ◽  
Reproductive Traits ◽  
Genetic Group ◽  
Milk Traits ◽  
Black And White ◽  
Service Period ◽  
White Breed ◽  
General Average ◽  
Fertility Traits

In this paper, results of the effect of direct and indirect selection of quantitative fertility traits of cattle end heritability level are presented. Study of the quantitative genetic parameters was carried out on three large farms of Black and White, Holstein-Friesian cattle. Investigation included 3900 first calving cows, daughters of 54 bull sires. The effect of genetic group of the head of cattle (genotype) and of the herd on fertility and milk traits of heifers and first calving cows of Black and White breed was investigated. Genetic group of the head of cattle (genotype) had no significant effect in variation of the fertility traits compared to general average (P<0.01). The effect of herd caused statistically significant and highly significant deviation from the general average, P < 0.05 and P < 0.01. Established heritability coefficients for fertility traits had low values for age at insemination (0,112), duration of pregnancy (0,045) and duration of service period (0,097). Results were obtained by applying mathematicalstatistical analysis of data - using mixed model (Harvey, 1990). Mathematical-statistical analysis of data was carried out using linear methods with fixed influence through model of Least Squares (LS method). Genotype of the head of cattle caused no significant deviation of fertility traits (P>0,05).

Analyzing discontinuities in longitudinal count data: A multilevel generalized linear mixed model.

2020 ◽  
Author(s):  
James L. Peugh ◽  
Sarah J. Beal ◽  
Meghan E. McGrady ◽  
Michael D. Toland ◽  
Constance Mara
Keyword(s):  
Count Data ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Generalized Linear Mixed Model ◽  
Longitudinal Count Data

Predicting bycatch hotspots based on suitable habitat derived from fishery-independent data

2020 ◽  
Vol 641 ◽  
pp. 159-175
Author(s):  
J Runnebaum ◽  
KR Tanaka ◽  
L Guan ◽  
J Cao ◽  
L O’Brien ◽  
...  
Keyword(s):  
Habitat Suitability ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Gulf Of Maine ◽  
Homarus Americanus ◽  
Management Tool ◽  
American Lobster ◽  
Suitable Habitat ◽  
Climate Conditions ◽  
Suitability Index

Bycatch remains a global problem in managing sustainable fisheries. A critical aspect of management is understanding the timing and spatial extent of bycatch. Fisheries management often relies on observed bycatch data, which are not always available due to a lack of reporting or observer coverage. Alternatively, analyzing the overlap in suitable habitat for the target and non-target species can provide a spatial management tool to understand where bycatch interactions are likely to occur. Potential bycatch hotspots based on suitable habitat were predicted for cusk Brosme brosme incidentally caught in the Gulf of Maine American lobster Homarus americanus fishery. Data from multiple fisheries-independent surveys were combined in a delta-generalized linear mixed model to generate spatially explicit density estimates for use in an independent habitat suitability index. The habitat suitability indices for American lobster and cusk were then compared to predict potential bycatch hotspot locations. Suitable habitat for American lobster has increased between 1980 and 2013 while suitable habitat for cusk decreased throughout most of the Gulf of Maine, except for Georges Basin and the Great South Channel. The proportion of overlap in suitable habitat varied interannually but decreased slightly in the spring and remained relatively stable in the fall over the time series. As Gulf of Maine temperatures continue to increase, the interactions between American lobster and cusk are predicted to decline as cusk habitat continues to constrict. This framework can contribute to fisheries managers’ understanding of changes in habitat overlap as climate conditions continue to change and alter where bycatch interactions could occur.

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