Inbreeding in a Population of Polish Holstein-Friesian Young Bulls Before and After Genomic Selection

AbstractInbreeding was analysed in a population of 14,144 Polish Black-and-White Holstein-Friesian (PBWHF) young bulls born between 1994 and 2017 and bred under both conventional and genomic breeding programmes. The inbreeding coefficients were computed using a model with genetic groups, according to the algorithm given by VanRaden. It was found that in the analysed population all bulls are inbred (100% of the population), with the mean coefficient of inbreeding ranging from 0.09% to 26.95%. Pedigree analysis also showed a relationship between the changing number of bulls over the years and the dynamics of population inbreeding. These trends are connected with changes in the breeding scheme, related to the implementation of genomic selection in the breeding programme for PBWHF cattle in 2014. The increasing number of weaned young bulls in Poland was paralleled by a fairly consistent increase in the mean inbreeding, but the inbreeding dynamics were relatively small. A reverse trend was observed in the group of young bulls born after 2013. As the number of bulls very rapidly decreased in successive birth years, the mean inbreeding for successive birth-year groups very rapidly increased. As a result, the estimated linear trend was equal to 0.02% inbreeding per year of birth in the group of bulls raised before genomic selection (~20 birth-year) whereas in the group of bulls raised after genomic selection (~4 birth-year) the trend was much higher and amounted to 0.56% inbreeding per year of birth. The high mean inbreeding found in the group of the genomically selected young bulls may translate into higher inbreeding in the whole population of PBWHF cattle, because these bulls are now intensively used as sires. The results of our study also show that the implementation of genomic selection in the breeding programme caused a very rapid increase in the inbreeding rate per birth-year in young bulls.

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BWGS: a R package for genomic selection and its application to a wheat breeding programme

10.1101/763037 ◽

2019 ◽

Author(s):

Gilles Charmet ◽

Louis Gautier Tran ◽

Jérôme Auzanneau ◽

Renaud Rincent ◽

Sophie Bouchet

Keyword(s):

Missing Data ◽

Genomic Selection ◽

Prediction Models ◽

Predictive Accuracy ◽

Predictive Ability ◽

Breeding Programme ◽

Training Set ◽

Desktop Computer ◽

Marker Selection ◽

Breeding Programmes

AbstractWe developed an integrated R library called BWGS to enable easy computation of Genomic Estimates of Breeding values (GEBV) for genomic selection. BWGS relies on existing R-libraries, all freely available from CRAN servers. The two main functions enable to run 1) replicated random cross validations within a training set of genotyped and phenotyped lines and 2) GEBV prediction, for a set of genotyped-only lines. Options are available for 1) missing data imputation, 2) markers and training set selection and 3) genomic prediction with 15 different methods, either parametric or semi-parametric.The usefulness and efficiency of BWGS are illustrated using a population of wheat lines from a real breeding programme. Adjusted yield data from historical trials (highly unbalanced design) were used for testing the options of BWGS. On the whole, 760 candidate lines with adjusted phenotypes and genotypes for 47 839 robust SNP were used. With a simple desktop computer, we obtained results which compared with previously published results on wheat genomic selection. As predicted by the theory, factors that are most influencing predictive ability, for a given trait of moderate heritability, are the size of the training population and a minimum number of markers for capturing every QTL information. Missing data up to 40%, if randomly distributed, do not degrade predictive ability once imputed, and up to 80% randomly distributed missing data are still acceptable once imputed with Expectation-Maximization method of package rrBLUP. It is worth noticing that selecting markers that are most associated to the trait do improve predictive ability, compared with the whole set of markers, but only when marker selection is made on the whole population. When marker selection is made only on the sampled training set, this advantage nearly disappeared, since it was clearly due to overfitting. Few differences are observed between the 15 prediction models with this dataset. Although non-parametric methods that are supposed to capture non-additive effects have slightly better predictive accuracy, differences remain small. Finally, the GEBV from the 15 prediction models are all highly correlated to each other. These results are encouraging for an efficient use of genomic selection in applied breeding programmes and BWGS is a simple and powerful toolbox to apply in breeding programmes or training activities.

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30 Inbreeding in American Angus cattle before and after the implementation of genomic selection

Journal of Animal Science ◽

10.1093/jas/skaa278.026 ◽

2020 ◽

Vol 98 (Supplement_4) ◽

pp. 14-14

Author(s):

Emmanuel A Lozada-Soto ◽

Francesco Tiezzi ◽

Duc Lu ◽

Stephen P Miller ◽

John B Cole ◽

...

Keyword(s):

Genomic Selection ◽

Effective Population ◽

Generation Interval ◽

Inbreeding Coefficients ◽

Angus Cattle ◽

Before And After ◽

Population Sizes ◽

The Mean ◽

Time Periods ◽

Genomic Inbreeding

Abstract The aim of this study was to characterize the American Angus cattle population in terms of changes to the inbreeding rate (ΔF) and effective population size (Ne) before and after the implementation of genomic selection (GS). Genomic information (89,206 SNPs) was obtained for 25,960 bulls and 134,962 cows born between the years 2000 and 2017. Bulls and cows were independently grouped into two groups based on year of birth, pre-GS (2000–2009), and post-GS (2010–2017). Genomic inbreeding (FGRM) was calculated assuming fixed allele frequencies (0.5). Inbreeding based on runs of homozygosity (FROH) was calculated using software SNP1101 (Sargolzaei, 2014). The yearly ΔF for each group was estimated by regressing the inbreeding coefficients on year of birth. The generation intervals (L) were calculated for each of the four pathways of selection at both time periods (pre-GS and post-GS), where the mean of the sires of sires and dams of sires pathways was taken to be the generation interval for the bulls and the mean of the sires of dams and dams of dams pathways was taken to be the generation interval for the cows. The L and ΔF of the three inbreeding coefficients were used to estimate the Ne. Estimates of ΔF and Ne for both sexes at the two time periods can be found in table 1. In both sexes, ΔFROH decreased and NeROH increased from pre-GS to post-GS. For bulls, ΔFGRM and NeGRM did not change, and for cows, ΔFGRM decreased and NeGRM increased from pre-GS to post-GS. These results suggest that the implementation of genomic selection in Angus cattle has not caused the increased inbreeding rates and reduced effective population sizes seen in other species, but instead has been beneficial for the preservation of genetic diversity.

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Use of repopulation for optimizing sow reproductive performance and piglet loss

Acta Veterinaria Brno ◽

10.2754/avb201483040321 ◽

2014 ◽

Vol 83 (4) ◽

pp. 321-325 ◽

Cited By ~ 4

Author(s):

Pavel Nevrkla ◽

Marie Čechová ◽

Zdeněk Hadaš

Keyword(s):

Reproductive Performance ◽

Breeding System ◽

Original Population ◽

Black And White ◽

Significant Difference ◽

Before And After ◽

The Mean

The objective of this study was to analyse sow reproductive performance and piglet loss from birth to weaning before and after repopulation of a selected farm. The observation was carried out on a productive sow farm; 160 sows were included in the experiment. Before repopulation, 80 sows from the 1st to the 5th litter were evaluated. The original population of sows was removed. Repopulated (newly stocked) group consisted of 80 gilts at the 1st litter. Newly delivered gilts with a status of minimum disease were placed into a decontaminated stable with a strict batch, black and white breeding system with stringent hygienic provisions. The piglets were weaned at the mean age of 28 ± 3 days. A very highly significant difference (P ≤ 0.001) in favour of the repopulated group of sows was found in the evaluation of the total number of piglets, the number of live-born piglets and the number of stillborn piglets in %; a significant difference (P ≤ 0.05) in favour of the repopulated group of sows was found in the number of stillborn piglets. In reared piglets and losses of piglets, both in numbers and percentage, a highly significant difference (P ≤ 0.001) was found in favour of the repopulated group. This study brings important information on the benefits of repopulation pig breeding.

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Analysis of Lifetime Performance and Culling Reasons in Black-and-White Holstein-Friesian Cows Compared with Crossbreds

Annals of Animal Science ◽

10.2478/aoas-2018-0036 ◽

2018 ◽

Vol 18 (4) ◽

pp. 1061-1079

Author(s):

Krzysztof Adamczyk ◽

Wojciech Jagusiak ◽

Joanna Makulska

Keyword(s):

Dairy Cows ◽

Herd Size ◽

Black And White ◽

Genetic Potential ◽

Lifetime Performance ◽

Holstein Friesian ◽

Mean Lifetime ◽

History Of ◽

The Mean ◽

Friesian Cows

AbstractThe effect of crossbreeding Holstein-Friesian cows with other breeds is usually improved genetic potential of crossbreds in terms of longevity. However, culling decisions, which in practice determine the longevity in dairy cows, are contingent on many environmental and economic factors. Therefore, the aim of this study was to evaluate longevity in relation to culling reasons in Holstein-Friesian cows of the Black-and-White strain (HO) and crossbreds, taking genotype, age at first calving, herd size, culling season, culling reason and milking temperament into consideration. The data analysed concerned 154,256 dairy cows culled in Poland in 2015. It was found that all studied factors significantly affected cow lifetime performance. The mean age at culling in dairy cows of HO strain exceeded 6 years, with mean lifetime energy-corrected milk (LECM) yield of 28,933 kg and mean lifetime energy-corrected milk yield per milking day (DECM) of 20.2 kg. Crossbreds, on the other hand, tended to have shorter lifespans, with mean LECM yield amounting to less than 25,000 kg. Mean LECM yield of cows surviving for the longest period (9.2 years), amounted to 47,771 kg, and reproduction problems were unquestionably the most common (40%) reason for cows’ culling. A suggestion was made to take milking temperament into account in breeding practice, as this trait proves to be closely related to the longevity characteristics of dairy cows. It was also proposed that the culling reasons be subjected to a more comprehensive analysis, considering the “life history” of cows as well as the interactions between different reasons for their removal from the herd.

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Perbedaan Pengetahuan Siswa Tentang Penyakit Hepatitis A Sebelum Dan Sesudah Penyuluhan Di MTsN 02 Bondowoso Tahun 2015

Jurnal Ilmu Kesehatan ◽

10.32831/jik.v4i2.85 ◽

2017 ◽

Vol 4 (2) ◽

pp. 14

Author(s):

Putri Megasari

Keyword(s):

Hepatitis A ◽

Hepatitis Virus ◽

Sampling Technique ◽

Mean Value ◽

Test Design ◽

The World ◽

Before And After ◽

Post Test ◽

The Mean ◽

Paired T Test

Hepatitis has become a health problem in the world. The hepatitis virus infected many people. According to the teacher of MTsN 02 Bondowoso more than 20 students have hepatitis A viral infection. The purpose of this research was to know the differences of students' knowledge about hepatitis A before and after counseling in MTsN 02 Bondowoso 2015. This study used pre-experimental (pre-post test design). This study used stratified random sampling technique, 127 students from 270 sample involved this research,and 143 students was excluded. We used questionnaires to collect data. The results showed that the mean value of the students 'knowledge about hepatitis A before counseling in MTsN 02 Bondowoso 2015 was 83.96 with the lowest value of 37.5 and the highest value was 100. The mean value of the students' knowledge about hepatitis A after counseling in MTsN 02 Bondowoso 2015 was 93.21 with the lowest value waf 62.5 and the highest value was 100. Paired t test showed that t (-9.07) > t table (1.98), the null hypothesis (H0) was rejected. There was a difference between students' knowledge about hepatitis A before and after counseling in MTsN 02 Bondowoso 2015. This study showed that routine counseling by healthcare provider was important to prevent hepatitis A infection.; Keywords: counseling, knowledge of students, hepatitis

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Quality of Life for Children with Persistent Sinonasal Symptoms

Otolaryngology ◽

10.1067/mhn.2003.41 ◽

2003 ◽

Vol 128 (1) ◽

pp. 17-26 ◽

Cited By ~ 97

Author(s):

David J. Kay ◽

Richard M. Rosenfeld

Keyword(s):

Quality Of Life ◽

Clinical Care ◽

Longitudinal Change ◽

Good Test ◽

Routine Clinical Care ◽

Before And After ◽

The Mean ◽

The Individual ◽

Sinonasal Symptoms

OBJECTIVE: The goal was to validate the SN-5 survey as a measure of longitudinal change in health-related quality of life (HRQoL) for children with persistent sinonasal symptoms. DESIGN AND SETTING: We conducted a before and after study of 85 children aged 2 to 12 years in a metropolitan pediatric otolaryngology practice. Caregivers completed the SN-5 survey at entry and at least 4 weeks later. The survey included 5 symptom-cluster items covering the domains of sinus infection, nasal obstruction, allergy symptoms, emotional distress, and activity limitations. RESULTS: Good test-retest reliability ( R = 0.70) was obtained for the overall SN-5 score and the individual survey items ( R ≥ 0.58). The mean baseline SN-5 score was 3.8 (SD, 1.0) of a maximum of 7.0, with higher scores indicating poorer HRQoL. All SN-5 items had adequate correlation ( R ≥ 0.36) with external constructs. The mean change in SN-5 score after routine clinical care was 0.88 (SD, 1.19) with an effect size of 0.74 indicating good responsiveness to longitudinal change. The change scores correlated appropriately with changes in related external constructs ( R ≥ 0.42). CONCLUSIONS: The SN-5 is a valid, reliable, and responsive measure of HRQoL for children with persistent sinonasal symptoms, suitable for use in outcomes studies and routine clinical care.

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Evaluation of pharmacy-led weight management service to minimise the risk of cardiovascular disease

Journal of Pharmaceutical Policy and Practice ◽

10.1186/s40545-021-00338-3 ◽

2021 ◽

Vol 14 (1) ◽

Author(s):

Aliki Peletidi ◽

Reem Kayyali

Keyword(s):

Physical Activity ◽

Weight Management ◽

Activity Levels ◽

Management Service ◽

Initial Weight ◽

Public Health Services ◽

Clinical Role ◽

Physical Activity Levels ◽

Before And After ◽

The Mean

Abstract Aims The primary aim of the programme was a minimum of a 5% weight reduction of the initial weight, while the secondary outcomes were a reduction in participants’ body mass index (BMI), waist circumference (WC), blood pressure (BP), AUDIT-C score and an increase in the Mediterranean diet (MD) score and an improvement in physical activity levels. Methods This 'before and after' study was a 10-week weight management (WM) programme and it was developed and delivered in community pharmacies in Patras chosen for convenience, thus consisting the first service of its type in Greece. The sample size was calculated (n = 96) based on the mean BMI for a Greek male and female individual, and the standard deviation (SD) of weight at baseline of 14 kg. Results Nearly every participant enrolled in the 20 participating pharmacies, 97.4% (n = 114/117), achieved the programme’s aim, losing at least 5% of their initial weight. The mean percentage of total weight loss of the 117 participants at the 10th week was 8.97% (SD 2.65), and the t-test showed statistically significant results (P-value < 0.001; 95% CI [8.48, 9.45]). A significant reduction in the waist-to-height ratio (WHtR) was observed in both male (P-value = 0.004) and female (P-value < 0.001) participants. The participants’ BP and AUDIT-C score and physical activity levels significantly improved (P-value < 0.001), as well as their MD score. Conclusion This study provides the first evidence that Greek pharmacists have the potential to play an important role within primary healthcare and that after training they are able to provide public health services for both the public’s benefit and their clinical role enhancement.

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CT perfusion in peripheral arterial disease—hemodynamic differences before and after revascularisation

European Radiology ◽

10.1007/s00330-021-07692-5 ◽

2021 ◽

Author(s):

Patrick Veit-Haibach ◽

Martin W. Huellner ◽

Martin Banyai ◽

Sebastian Mafeld ◽

Johannes Heverhagen ◽

...

Keyword(s):

Peripheral Arterial Disease ◽

Ct Perfusion ◽

Arterial Disease ◽

Lower Leg ◽

Therapy Control ◽

Non Invasive ◽

Before And After ◽

Invasive Method ◽

The Mean ◽

Peripheral Arterial

Abstract Objectives The purpose of this study was the assessment of volumetric CT perfusion (CTP) of the lower leg musculature in patients with symptomatic peripheral arterial disease (PAD) before and after interventional revascularisation. Methods Twenty-nine consecutive patients with symptomatic PAD of the lower extremities requiring interventional revascularisation were assessed prospectively. All patients underwent a CTP scan of the lower leg, and hemodynamic and angiographic assessment, before and after intervention. Ankle-brachial pressure index (ABI) was determined. CTP parameters were calculated with a perfusion software, acting on a no outflow assumption. A sequential two-compartment model was used. Differences in CTP parameters were assessed with non-parametric tests. Results The cohort consisted of 24 subjects with an occlusion, and five with a high-grade stenosis. The mean blood flow before/after (BFpre and BFpost, respectively) was 7.42 ± 2.66 and 10.95 ± 6.64 ml/100 ml*min−1. The mean blood volume before/after (BVpre and BVpost, respectively) was 0.71 ± 0.35 and 1.25 ± 1.07 ml/100 ml. BFpost and BVpost were significantly higher than BFpre and BVpre in the treated limb (p = 0.003 and 0.02, respectively), but not in the untreated limb (p = 0.641 and 0.719, respectively). Conclusions CTP seems feasible for assessing hemodynamic differences in calf muscles before and after revascularisation in patients with symptomatic PAD. We could show that CTP parameters BF and BV are significantly increased after revascularisation of the symptomatic limb. In the future, this quantitative method might serve as a non-invasive method for surveillance and therapy control of patients with peripheral arterial disease. Key Points • CTP imaging of the lower limb in patients with symptomatic PAD seems feasible for assessing hemodynamic differences before and after revascularisation in PAD patients. • This quantitative method might serve as a non-invasive method, for surveillance and therapy control of patients with PAD.

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Unilateral lateral rectus recession is an effective surgery for intermittent exotropia in young children

BMC Ophthalmology ◽

10.1186/s12886-020-01778-2 ◽

2021 ◽

Vol 21 (1) ◽

Author(s):

Oriel Spierer ◽

Abraham Spierer

Keyword(s):

Young Children ◽

Success Rate ◽

Lateral Rectus ◽

Intermittent Exotropia ◽

Age At Surgery ◽

Surgical Methods ◽

Before And After ◽

The Mean ◽

Consecutive Esotropia

Abstract Background Different surgical methods have been suggested for the correction of intermittent exotropia. Unilateral lateral rectus recession has been described as a surgical alternative for small and moderate-angle exotropia. In general, previous studies did not focus on the outcomes of unilateral lateral rectus recession in young children with intermittent exotropia. The purpose of this study is to evaluate the surgical outcomes of unilateral lateral rectus recession in the treatment of moderate-angle exotropia (≤ 25 PD (prism diopters)) in children. Methods The charts of all patients younger than 12 years of age with moderate-angle exotropia (up to 25 PD) who were operated during the years 2006–2018 were retrospectively reviewed. Fifty-eight patients underwent unilateral lateral rectus recession and had a minimum follow up of 6 months. The angle of exotropia (PD) before and after surgery and the success rate were documented. Results Mean age at surgery was 6.4 ± 1.9 (range 3.5–11.0) years. Exotropia improved from a preoperative angle of 21.4 ± 4.0 PD to 3.5 ± 5.9 PD postoperatively (p < 0.001). Success rate, defined as deviation of ≤ 10 PD, was achieved in 86.2%. There were 2 (3.4%) cases of overcorrection (consecutive esotropia). There were no intra- or postoperative complications. The mean follow-up duration after surgery was 2.3 ± 1.7 years. Conclusions In children with moderate angle exotropia, good postoperative success rate was achieved by performing unilateral lateral rectus recession.

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Evaluation of Changes in Depression Levels of Bruxism Patients Treated With Botulinum Toxin-A

Journal of Advanced Oral Research ◽

10.1177/23202068211006554 ◽

2021 ◽

pp. 232020682110065

Author(s):

Deniz Erdil ◽

Nilsun Bagis ◽

Hakan Eren ◽

Melike Camgoz ◽

Kaan Orhan

Keyword(s):

Botulinum Toxin ◽

Botulinum Toxin A ◽

Age Groups ◽

Treatment Method ◽

Definitive Treatment ◽

Toxin A ◽

Physiological Factors ◽

Before And After ◽

The Mean ◽

Post Hoc

Aim: Bruxism is defined as the involuntary recurrent masticatory muscle activity characterized by gnashing, grinding, clenching of teeth, and/or pushing the mandible. Factors creating its etiology are peripheral (morphological) or central (physiopathological and physiological), and exogenous. Recently, among physiological factors, depression and bruxism were considered to be related. A definitive treatment method does not exist for bruxism; however, botulinum toxin-A (BT-A) application is an up-to-date and effective way of treatment. The present study is aimed to evaluate the levels of depression in bruxism patients treated with BT-A application. Materials and Methods: A total of 25 individuals (23 females and 2 males) who were diagnosed as bruxism patients were included in the study. 25 U of BT-A for each masseter muscle was injected into the patients. Patients were prospectively observed for a possible change in depression levels by using Beck’s Depression Inventory. The inventory was implemented before and six months after the BT-A application. Depression levels before and six months after the injection were compared. A paired t-test was used to compare “before” and “after” treatment values. One-way analysis of variance and post-hoc Tukey tests were used to evaluate the change in Beck’s Depression Inventory scores according to age groups. Results: The mean total score was 7.80 ± 8.10 before the treatment and 7.16 ± 6.52 six months after the treatment. The decrease in the mean score was not statistically significant ( P > .05). Conclusion: In conclusion, despite the decrease in the mean Beck’s Depression Inventory scores, a statistically significant decrease in the depression levels of patients was not observed.

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