• Animal Bioscience
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• 제34권4호
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• pp.506-515
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• 2021

Objective: Initial consequence of inbreeding is inbreeding depression which impairs the performance of growth, production, health, fertility and survival traits in different animal breeds and populations. The effect of inbreeding on economically important traits should be accurately estimated. The effect of inbreeding depression on growth traits in sheep has been reported in many breeds. Based on this, the main objective of the present research was to evaluate the impact of inbreeding on some growth traits of Iranian Baluchi sheep breed using quantile regression model. Methods: Pedigree and growth traits records of 13,633 Baluchi lambs born from year 1989 to 2016 were used in this research. The traits were birth weight, weaning weight, six-month weight, nine-month weight, and yearling weight. The contribution, inbreeding and co-ancestry software was used to calculate the pedigree statistics and inbreeding coefficients. To evaluate the impact of inbreeding on different quantiles of each growth trait, a series of quantile regression models were fitted using QUANTREG procedure of SAS software. Annual trend of inbreeding was also estimated fitting a simple linear regression of lamb's inbreeding coefficient on the birth year. Results: Average inbreeding coefficient of the population was 1.63 percent. Annual increase rate of inbreeding of the flock was 0.11 percent (p<0.01). The results showed that the effect of inbreeding in different quantiles of growth traits is not similar. Also, inbreeding affected differently on growth traits, considering lambs' sex and type of birth. Conclusion: Quantile regression revealed that inbreeding did not have similar effect on different quantiles of growth traits in Iranian Baluchi lambs indicating that at a given age and inbreeding coefficient, lambs with different sex and birth type were not equally influenced by inbreeding.

• Proceedings of the National Institute of Ecology of the Republic of Korea
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• 제2권2호
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• pp.108-113
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• 2021

Detrimental effects of inbreeding have been studied by many researchers for a long time. However, only a few studies have shown the occurrence of inbreeding depression due to evolutionary changes as a purging process. In this study, two different populations (inbreeding and outbreeding) of Drosophila melanogaster were compared to assess inbreeding effects on artificial population bottlenecks. For inbreeding conditions, a couple of D. melanogaster (one virgin and one male) were selected from an inbred population and cultured in a vial. For outbreeding conditions, a couple of D. melanogaster were selected from different populations and cultured in a vial. There were significant differences in body lengths of adults, but not in other parameters such as the total number of adults, the rate of survival, and the rate of wing mutants. The mean body length of adults of outbreeding populations was longer than that of inbreeding populations in the first generation (G1; P = 0.004), but not in the second generation (G2; P = 0.066). Although the other three parameters (total number of adults, rate of survival, and rate of wing mutants) showed differences in their mean values between inbreeding and outbreeding populations, these differences were not statistically significant. This might be due to genetic purging. This study demonstrated one additional experimental case related to inbreeding depression in artificial bottlenecked populations. Further studies are necessary to confirm the clear interaction between inbreeding depression and genetic purging using more generations and replicates (or samples) of D. melanogaster.

• Asian-Australasian Journal of Animal Sciences
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• 제25권3호
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• pp.299-303
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• 2012

Inbreeding is the mating of relatives that produce progeny having more homozygous alleles than non-inbred animals. Inbreeding increases numbers of recessive alleles, which is often associated with decreased performance known as inbreeding depression. The magnitude of inbreeding depression depends on the level of inbreeding in the animal. Level of inbreeding is expressed by the inbreeding coefficient. One breeding goal in livestock is uniform productivity while maintaining acceptable inbreeding levels, especially keeping inbreeding less than 20%. However, in closed herds without the introduction of new genetic sources high levels of inbreeding over time are unavoidable. One method that increases selection response and minimizes inbreeding is selection of individuals by weighting estimated breeding values with average relationships among individuals. Optimum genetic contribution theory (OGC) uses relationships among individuals as weighting factors. The algorithm is as follows: i) Identify the individual having the best EBV; ii) Calculate average relationships ($\bar{r_j}$) between selected and candidates; iii) Select the individual having the best EBV adjusted for average relationships using the weighting factor k, $EBV^*=EBV_j(1-k\bar{{r}_j})$ Repeat process until the number of individuals selected equals number required. The objective of this study was to compare simulated results based on OGC selection under different conditions over 30 generations. Individuals (n = 110) were generated for the base population with pseudo random numbers of N~ (0, 3), ten were assumed male, and the remainder female. Each male was mated to ten females, and every female was assumed to have 5 progeny resulting in 500 individuals in the following generation. Results showed the OGC algorithm effectively controlled inbreeding and maintained consistent increases in selection response. Difference in breeding values between selection with OGC algorithm and by EBV only was 8%, however, rate of inbreeding was controlled by 47% after 20 generation. These results indicate that the OGC algorithm can be used effectively in long-term selection programs.

• Asian-Australasian Journal of Animal Sciences
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• 제17권5호
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• pp.594-597
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• 2004

A pedigree file of 4,628 records of Muzaffarnagari sheep, maintained at Central Institute for Research on Goats (CIRG), Makhdoom, was used to calculate the inbreeding coefficient of the flock. The flock had been closed for about 25 years (1978 to 2002). The investigation was aimed to study the effects of inbreeding on survivability of lambs. The cumulative survivability of lambs i.e., lambs survived up to 3, 7 and 15 days, 1, 2, 3, 6, 9 and 12 months after birth was considered for the study. The average level of inbreeding of lambs was 1.60%, ranging from 0 to 26.4%. The average inbreeding coefficient of dam over the periods was 1.00% and it ranged from 0 to 25.0%. Significant (p<0.05) adverse effect of lamb's inbreeding was observed on survivability of lambs at all ages except up to 3 and 7 days after birth. On an average, 1% increase in individual inbreeding coefficient should reduce the 0.31, 0.34, 0.32, 0.31, 0.33, 0.44 and 0.49 percent lamb survival up to the age of 15 day and 1, 2, 3, 6, 9 and 12 months, respectively. Ewes inbreeding had non-significant effects on lamb survival at all ages.

• Asian-Australasian Journal of Animal Sciences
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• 제18권10호
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• pp.1363-1367
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• 2005

A pedigree file of 4,738 records of a purebred flock of Muzaffarnagari sheep, maintained at Central Institute for Research on Goats (CIRG), Makhdoom, for a period of 24 years (1978 to 2001) was used to calculate inbreeding coefficients. The lambtraits studied were birth, 3, 6, 9 and 12 months weights as well as 6 and 12 months fleece yields. The lambs' and ewes' inbreeding coefficients ranged from 0 to 26.4% and 0 to 25%, respectively. The average inbreeding coefficient of lambs was higher than that of ewes in all periods as expected in a closed flock. Fluctuations in lamb and ewe inbreeding were observed in the periods under study. The percentages of animals in the higher inbred categories varied somewhat but generally were relatively constant. The mean rate of inbreeding was 0.63% per generation. The effective population size of the flock was 79.1. On average, an increase of 1% individual inbreeding significantly (p<0.05) reduced weights at birth by 0.010 kg, at 3 month by 0.048 kg, at 6 month by 0.075 kg, at 9 month by 0.129 kg and at 12 month by 0.112 kg. Ewes' inbreeding had non-significant effects on body weight at all ages. Effects of both lambs' and ewes' inbreeding had negative but non-significant effects on fleece weights at 6 and 12 months of age. Thus, inbreeding depression in lambs significantly reduced body weights from birth to 12 months of age but had a negligible effect on fleece yields.

• Asian-Australasian Journal of Animal Sciences
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• 제15권12호
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• pp.1686-1689
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• 2002

Genetic gains and inbreeding coefficients in a Holstein MOET breeding population were predicted under different conditions relating to the distribution of the number of transferable embryos collected per flush using Monte Carlo simulation. The numbers of transferable embryos collected per flush were determined using five distributions (distributions 1, 3, 5, 7 and 9) with different aspects and similar means. Distributions 1, 3, 5, 7 and 9 were assumed to have gamma distribution's parameters ($\alpha$ and $\beta$) of (1 and 4.4), (3 and 1.47), (5 and 0.88), (7 and 0.63) and (9 and 0.49), respectively. Inbreeding rates were statistically significantly different among distributions but genetic gains were not. Relationships between inbreeding rates and variances of family size could be were clearly distinguished. The highest inbreeding coefficients were predicted in distribution 1 with the largest variance of family size, while distributions 5, 7 and 9 with smaller variance of family size had lower inbreeding coefficients.

• Asian-Australasian Journal of Animal Sciences
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• 제19권9호
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• pp.1217-1224
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• 2006

The registration data of 15 populations from nine major swine breeding farms were investigated to check levels of inbreeding and the current status of pedigree structures of breeding stocks. The average rate of inbreeding per generation was 0.208%, 0.209%, 0.098%, 0.307% and 0.071% for farms D, S, K, H, and Y in Duroc, 0.071%, 0.188%, 0.685%, 0.336%, and 0.449% for farms S, H, C, J, and W in Landrace, and 0.243%, 0.123%, 0.103%, 0.165%, and 0.286% for farms D, S, G, H, and J in Yorkshire, respectively. The average inbreeding rate was highest for Landrace, intermediate for Yorkshire, and lowest for Duroc farms. In Landrace and Yorkshire populations there were few immigrant animals per generation. In Duroc, however, there were quite large numbers of immigrant animals per generation compared to other breeds. The effective population sizes calculated from the average rate of inbreeding were distributed between 73.0 and 708.7. Specific values were 204.8, 239.7, 508.8, 163.0 and 708.2 for farms D, S, K, H, and Y in Duroc, 708.7, 266.5, 73.0, 148.9, and 111.3 for farms S, H, C, J, and W in Landrace, and 205.5, 406.0, 486.9, 302.6 and 175.0 for farms D, S, G, H, and J in Yorkshire, respectively. The values were acceptable for natural selection for fitness and inbreeding depression. The results showed that there was no cause for concern over the current inbreeding level of major swine breeding farm populations and the inbreeding level was within an acceptable range.

• Animal Bioscience
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• 제37권8호
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• pp.1355-1366
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• 2024

Objective: The analysis of runs of homozygosity (ROH) has been applied to assess the level of inbreeding and identify selection signatures in various livestock species. The objectives of this study were to characterize the ROH pattern, estimate the rate of inbreeding, and identify signatures of selection in the red-brown Korean native chickens. Methods: The Illumina 60K single nucleotide polymorphism chip data of 651 chickens was used in the analysis. Runs of homozygosity were analysed using the PLINK v1.9 software. Inbreeding coefficients were estimated using the GCTA software and their correlations were examined. Genomic regions with high levels of ROH were explored to identify selection signatures. Results: A total of 32,176 ROH segments were detected in this study. The majority of the ROH segments were shorter than 4 Mb. The average ROH inbreeding coefficients (F_ROH) varied with the length of ROH segments. The means of inbreeding coefficients calculated from different methods were also variable. The correlations between different inbreeding coefficients were positive and highly variable (r = 0.18-1). Five ROH islands harbouring important quantitative trait loci were identified. Conclusion: This study assessed the level of inbreeding and patterns of homozygosity in Red-brown native Korean chickens. The results of this study suggest that the level of recent inbreeding is low which indicates substantial progress in the conservation of red-brown Korean native chickens. Additionally, Candidate genomic regions associated with important production traits were detected in homozygous regions.

• Reproductive and Developmental Biology
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• 제37권3호
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• pp.123-127
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• 2013

The objective of this study was to compare the effects of the levels of inbreeding on body weight traits between two breed populations, Hanwoo and Korea Brindle cattle. Birth weight (BW), weaning weight (WW), body weight at 6 months of age (W6) and yearling weight (YW). Records of 1,745 calves (1,513 from Hanwoo, and 232 from Korea Brindle calves) were collected from Livestock Research Institutes in Kangwon, Gyeongbuk and Chungbuk provinces. The least squares means (LSM) and their standard errors for BW, WW, W6 and YW were $25.4{\pm}0.1$ kg, $81.0{\pm}1.8$ kg, $146.1{\pm}3.7$ kg and $291.5{\pm}2.4$ kg, respectively in Hanwoo calves and $22.6{\pm}0.3$ kg, $79.9{\pm}2.3$ kg, $137.6{\pm}4.6$ kg and $249.3{\pm}6.6$ kg, respectively in Korea Brindle calves. Pedigree data showed that 14.8% (316 out of 2131) of Hanwoo was inbred and the average inbreeding coefficient was 0.0209 (2.09%). Inbreeding coefficients of ten calves out of 316 total inbred Hanwoo calves were 12.5% or higher, whereas those of the other 306 calves were less than 12.5%. In both breeds, calves were divided into three groups of inbreeding classes - highly inbred group($F{\geq}0.125$), lowly to medially inbred group(0

• Journal of Animal Science and Technology
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• 제56권8호
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• pp.31.1-31.9
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• 2014

The objective of this study was to describe the population structure and inbreeding, and to quantify their effects on weights at different ages of Mehraban sheep in Iran. The analysis was based on the pedigree information of 26990 animals and 10278 body weight records from birth to yearling age. Data and pedigree information were collected during 1994 to 2011 by the breeding station of Mehraban sheep. The population structure was analyzed using the CFC program. Inbreeding of all animals was calculated by INBUPGF90 program. All animals were grouped into three classes according to their inbreeding coefficients: the first class included non-inbred animals (F=0); and the second and third classes included inbred animals (0$F{\geq}0.05$, respectively). The average inbreeding in Mehraban sheep was 1.69%. Founder equivalent ($f_e$) values were estimated to be 4244, 3116 and 2965 during 1994-1999, 2000-2005 and 2006-2011, respectively. The effective population sizes ($N_e$) were 363, 5080 and 5740 during 1994-1999, 2000-2005 and 2006-2011, respectively. Generation interval was 2.15 years for this breed of sheep. Regression coefficients of birth weight, 3-month weight, 6-month weight and yearling weight on lamb inbreeding were estimated to be -6.340.69, -14.685.33, 48.009.43 and 98.6515.65, respectively. Both positive and negative inbreeding effects were found in the current study. The utilization of a program for designed mating system, in the present flock, could be a suitable approach to keep the level of inbreeding under control.