Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “Inbreeding”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 19 recordsLinked to original sources

Selection and inbreeding depression: effects of inbreeding rate and inbreeding environment.

The magnitude of inbreeding depression in small populations may depend on the effectiveness with which natural selection purges deleterious recessive alleles from populations during inbreeding. The effectiveness of this purging process, however, may be influenced by the rate of inbreeding and the environment in which inbreeding occurs. Although some experimental studies have examined these factors individually, no study has examined their joint effect or potential interaction. In the present study, therefore, we performed an experiment in which 180 lineages of Drosophila melanogaster were inbred at slow and fast inbreeding rates within each of three inbreeding environments (benign, high temperature, and competitive). The fitness of all lineages was then measured in a common benign environment. Although slow inbreeding reduced inbreeding depression in lineages inbred under high temperature stress, a similar reduction was not observed with respect to the benign or competitive treatments. Overall, therefore, the effect of inbreeding rate was nonsignificant. The inbreeding environment, in contrast, had a larger and more consistent effect on inbreeding depression. Under both slow and fast rates of inbreeding, inbreeding depression was significantly reduced in lineages inbred in the presence of a competitor D. melanogaster strain. A similar reduction of inbreeding depression occurred in lineages inbred under high temperature stress at a slow inbreeding rate. Overall, our findings show that inbreeding depression is reduced when inbreeding takes place in a stressful environment, possibly due to more effective purging under such conditions.

Animals↗

Ancestral inbreeding reduces the magnitude of inbreeding depression in Drosophila melanogaster.

The influence of natural selection on the magnitude of inbreeding depression is an important issue in conservation biology and the study of evolution. It is generally expected that the magnitude of inbreeding depression in small populations will depend upon the average homozygosity of individuals, as measured by the coefficient of inbreeding (F). However, if deleterious recessive alleles are selectively purged from populations during inbreeding, then inbreeding depression may differ among populations in which individuals have the same inbreeding coefficient. In such cases, the magnitude of inbreeding depression will partly depend on the ancestral inbreeding coefficient (fa), which measures the cumulative proportion of loci that have historically been homozygous and therefore exposed to natural selection. We examined the inbreeding depression that occurred in lineages of Drosophila melanogaster maintained under pedigrees that led to the same inbreeding coefficient (F = 0.375) but different levels of ancestral inbreeding (fa = 0.250 or 0.531). Although inbreeding depression varied substantially among individual lineages, we observed a significant 40% decrease in the median level of inbreeding depression in the treatment with higher ancestral inbreeding. Our results demonstrate that high levels of ancestral inbreeding are associated with greater purging effects, which reduces the inbreeding depression that occurs in isolated populations of small size.

Alleles↗

Effect of incomplete pedigrees on estimates of inbreeding and inbreeding depression for days to first service and summit milk yield in Holsteins and Jerseys.

A method to measure completeness of pedigree information is applied to populations of Holstein (registered and grade) and Jersey (largely registered) cows. Inbreeding coefficients where missing ancestors make no contribution were compared to a method using average relationships for missing ancestors. Estimated inbreeding depression was from an animal model that simultaneously adjusted for breeding values. Inbreeding and its standard deviation increased with more information, from 0.04 +/- 0.84 to 1.65 +/- 2.05 and 2.06 +/- 2.22 for grade Holsteins with <31%, 31 to 70%, and 71 to 100% complete five-generation pedigrees. Inbreeding from the method of average relationships for missing ancestors was 2.75 +/- 1.06, 3.10 +/- 2.21, and 2.89 +/- 2.37 for the same groups. Pedigrees of registered Holsteins and Jerseys were over 97% and over 89% complete, respectively. Inbreeding depression in days to first service and summit milk yield was estimated from both methods. Inbreeding depression for days to first service was not consistently significant for grade Holsteins and ranged from -0.37 d/1% increase in inbreeding (grade Holstein pedigrees <31% complete) to 0.15 d for grade Holstein pedigrees >70% complete. Estimates were similar for both methods. Inbreeding depression for registered Holsteins and Jerseys were positive (undesirable) but not significant for days to first service. Inbreeding depressed summit milk yield significantly in all groups by both methods. Summit milk yield declined by -0.12 to -0.06 kg/d per 1% increase in inbreeding in Holsteins and by -0.08 kg/1% increase in inbreeding in Jerseys. Pedigrees of grade animals are frequently incomplete and can yield misleading estimates of inbreeding depression. This problem is not overcome by inserting average relationships for missing ancestors in calculation of inbreeding coefficients.

Animals↗

A test of quantitative genetic theory using Drosophila- effects of inbreeding and rate of inbreeding on heritabilities and variance components.

Inbreeding is expected to decrease the heritability within populations. However, results from empirical studies are inconclusive. In this study, we investigated the effects of three breeding treatments (fast and slow rate of inbreeding - inbred to the same absolute level - and a control) on heritability, phenotypic, genetic and environmental variances of sternopleural bristle number in Drosophila melanogaster. Heritability, and phenotypic, genetic and environmental variances were estimated in 10 replicate lines within each of the three treatments. Standard least squares regression models and Bayesian methods were used to analyse the data. Heritability and additive genetic variance within lines were higher in the control compared with both inbreeding treatments. Heritabilities and additive genetic variances within lines were higher in slow compared with fast inbred lines, indicating that slow inbred lines retain more evolutionary potential despite the same expected absolute level of inbreeding. The between line variance was larger with inbreeding and more than twice as large in the fast than in the slow inbred lines. The different pattern of redistribution of genetic variance within and between lines in the two inbred treatments cannot be explained invoking the standard model based on selective neutrality and additive gene action. Environmental variances were higher with inbreeding, and more so with fast inbreeding, indicating that inbreeding and the rate of inbreeding affect environmental sensitivity. The phenotypic variance decreased with inbreeding, but was not affected by the rate of inbreeding. No inbreeding depression for mean sternopleural bristle number was observed in this study. Considerable variance between lines in additive genetic variance within lines was observed, illustrating between line variation in evolutionary potential.

Analysis of Variance↗

Reduced inbreeding depression due to historical inbreeding in Drosophila melanogaster: evidence for purging.

An important issue in conservation biology and the study of evolution is the extent to which inbreeding depression can be reduced or reversed by natural selection. If the deleterious recessive alleles causing inbreeding depression can be 'purged' by natural selection, outbred populations that have a history of inbreeding are expected to be less susceptible to inbreeding depression. This expectation, however, has not been realized in previous laboratory experiments. In the present study, we used Drosophila melanogaster as a model system to test for an association between inbreeding history and inbreeding depression. We created six 'purged' populations from experimental lineages that had been maintained at a population size of 10 male-female pairs for 19 generations. We then measured the inbreeding depression that resulted from one generation of full-sib mating in the purged populations and in the original base population. The magnitude of inbreeding depression in the purged populations was approximately one-third of that observed in the original base population. In contrast to previous laboratory experiments, therefore, we found that inbreeding depression was reduced in populations that have a history of inbreeding. The large purging effects observed in this study may be attributable to the rate of historical inbreeding examined, which was slower than that considered in previous experiments.

Alleles↗

Genomic inbreeding coefficients and inbreeding depression of semen production traits at genome-wide and chromosomal levels in Japanese Holstein bulls.

We aimed to estimate inbreeding coefficients and the effects of inbreeding depression on semen production traits at both the genome-wide and chromosomal levels. We utilized pedigree data for 19,921 animals, single nucleotide polymorphism (SNP) data on 5700 Japanese Holstein bulls, and 52,193 semen collection records from 775 bulls. We estimated 4 different inbreeding coefficients, namely a pedigree-based coefficient (FPED) and 3 genomic coefficients derived from SNP data. The genomic coefficients consisted of one based on the genomic relationship matrix (FGRM), one based on runs of homozygosity (ROH), and one based on homozygous-by-descent (HBD) segments (FHBD). These genomic coefficients were estimated at both the genome-wide and chromosomal levels. Furthermore, we investigated the effects of these coefficients on semen production traits: semen volume (VOL), sperm concentration (CON), sperm number (NUM), and sperm motility (MOT). In the genome-wide-level analysis, inbreeding coefficients increased markedly in bulls born after 2009, coinciding with the introduction of genomic selection. Significant inbreeding depression of VOL was found. At the chromosomal level, the inbreeding coefficients for most chromosomes showed a similar trend to the genome-wide metrics, although some (e.g., chr10 and chr20) exhibited a more pronounced trend. Suggestive inbreeding effects were detected on specific chromosomes for all traits (chr1 and chr22 for VOL, chr24 and chr29 for CON, chr1, chr12, and chr27 for NUM, chr10 and chr18 for MOT), including the traits that were not significant at the genome-wide level. Our results highlight that chromosomal-level analysis provides information complementary to whole-genome metrics, offering a more detailed perspective for managing inbreeding effects. To mitigate the adverse effects of inbreeding on semen production traits, future breeding programs would benefit from the control of inbreeding effects on high-risk chromosomal regions.

Genomic inbreeding coefficient↗

Individual variation in inbreeding depression: the roles of inbreeding history and mutation.

We use mutation-selection recursion models to evaluate the relative contributions of mutation and inbreeding history to variation among individuals in inbreeding depression and the ability of experiments to detect associations between individual inbreeding depression and mating system genotypes within populations. Poisson mutation to deleterious additive or recessive alleles generally produces far more variation among individuals in inbreeding depression than variation in history of inbreeding, regardless of selfing rate. Moreover, variation in inbreeding depression can be higher in a completely outcrossing or selfing population than in a mixed-mating population. In an initially random mating population, the spread of a dominant selfing modifier with no pleiotropic effects on male outcross success causes a measurable increase in inbreeding depression variation if its selfing rate is large and inbreeding depression is caused by recessive lethals. This increase is observable during a short period as the modifier spreads rapidly to fixation. If the modifier alters selfing rate only slightly, it fails to spread or causes no measurable increase in inbreeding depression variance. These results suggest that genetic associations between mating loci and inbreeding depression loci could be difficult to demonstrate within populations and observable only transiently during rapid evolution to a substantially new selfing rate.

Animals↗

Analysis of levels of inbreeding and inbreeding depression in Jersey cattle.

A pedigree file of 157,015 male and female Jersey cattle (born after 1955) from the Canadian herdbooks was investigated for the occurrence of inbreeding. A large proportion of Jersey bulls and cows were inbred (32.4 and 36.3% for bulls and cows, respectively). However, average inbreeding coefficients of these inbred cows and of all cows were low. First lactation milk, fat, and fat percentage records for 53,592 Jersey cows were analyzed. Inbreeding was included in the animal model as a linear covariate. The regression coefficients of milk, fat, and fat percentage on inbreeding were -9.84 kg, -.55 kg, and -.0011% per 1% increase of inbreeding. Inbreeding depression was not enough to cause large reductions of milk and fat yield of a cow with average inbreeding. However, when the inbreeding coefficient was greater than 12.5%, the inbreeding depression was significantly higher than expected and such that intentional inbreeding is not justified unless the mating is to an animal with exceptionally high breeding value.

Algorithms↗

Inbreeding and prereproductive mortality in the Old Order Amish. III. Direct and indirect effects of inbreeding.

Direct and indirect (mediated by biologic factors) effects of inbreeding on prereproductive mortality (death before age 20 years) were investigated in a case-control study conducted in the Lancaster County, Pennsylvania, Old Order Amish. A total of 211 cases of prereproductive death between 1969 and 1980 and 213 live controls were compared for differences in inbreeding coefficients, congenital malformations, birth weight, gestational age, birth complications, and other demographic factors, obtained by linking cases and controls to vital records and the Amish genealogic registry dating back to the 1700s. Inbreeding coefficients (F) for cases and controls were computed using the path method of tracing common ancestors in the multigenerational pedigrees. Close inbreeding (F greater than or equal to 1/64) was a significant risk factor for prereproductive mortality; odds ratio = 1.55. Using the log-linear model, the effect of close inbreeding on mortality was found to be mediated by three indirect casual mechanisms: Regardless of case-control status, inbreeding was significantly related to congenital malformations (recorded at birth), intrauterine growth retardation (birth weight less than 10th percentile for gestational age), and the occurrence of other deaths in the sibship. In turn, each of these factors was independently related to mortality regardless of inbreeding. No significant direct effect of inbreeding remained after adjustment for these factors. There were no effects of inbreeding on prematurity (less than 37 weeks), or birth complications. This study suggests that inbreeding increases the risk of prereproductive mortality by increasing the risk of intrauterine growth retardation and congenital malformations but not prematurity. The log-linear model provides a useful approach to the analysis of direct and indirect risk factors using biologic mechanisms.

Congenital Abnormalities↗

Effects of inbreeding and rate of inbreeding in Drosophila melanogaster- Hsp70 expression and fitness.

Induction of heat shock proteins (Hsp) is a well-known mechanism through which cells cope with stressful conditions. Hsp are induced by a variety of extrinsic stressors. However, recently intrinsic stressors (aging and inbreeding) have been shown to affect expression of Hsp. Increased homozygosity due to inbreeding may disrupt cellular homeostasis by causing increased expression of recessive deleterious mutations and breakdown of epistatic interactions. We investigated the effect of inbreeding and the rate of inbreeding on the expression of Hsp70, larval heat resistance and fecundity. In Drosophila melanogaster we found that inbred lines (F approximately 0.67) had significantly up-regulated expression of Hsp70, and reduced heat resistance and fecundity as compared with outbred control lines. A significant negative correlation was observed between Hsp70 expression and resistance to an extreme heat stress in inbred lines. We interpreted this as an increased requirement for Hsp70 in the lines suffering most from inbreeding depression. Inbreeding depression for fecundity was reduced with a slower rate of inbreeding compared with a fast rate of inbreeding. Thus, the effectiveness of purging seems to be improved with a slower rate of inbreeding.

Adaptation, Physiological↗

Average inbreeding or equilibrium inbreeding?

The equilibrium inbreeding is always higher than the average inbreeding. For human populations with high inbreeding levels, the inbreeding equilibrium is more than 25% higher than the average inbreeding. Assuming no initial inbreeding in the population, the equilibrium inbreeding value is closely approached in 10 generations or less. A secondary effect of this higher inbreeding level is that the equilibrium frequency of recessive detrimental alleles is somewhat lower than expected using average inbreeding.

Consanguinity↗

Inbreeding and inbreeding depression on reproduction and production traits of White Leghorn lines selected for egg production traits.

1. The rate of inbreeding and its effect on reproduction and egg production traits were studied in White Leghorn lines selected for egg production traits. The experiment was carried out for 10 generations in a control line (C) and in lines selected for increased egg number (EN), egg weight (EW) and egg mass (EM). 2. Data were available on reproduction traits, such as percent fertile eggs (PF), percent hatched of fertile eggs (PHF) and percent hatched of total eggs set (PHT), and on egg production traits such as age at 1st egg (AFE), egg number and egg weight. 3. The rate of increase in average inbreeding per generation was 1.50, 1.24, 1.14 and 0.18% for the line EN, EW, EM and C, respectively. The effect of inbreeding on reproduction and production traits was estimated by including the inbreeding coefficient of the hen (Fh), embryo (Fe) and mate (Fs) as a partial linear regression in the model. 4. There was a significant effect of inbreeding on reproduction traits in line EW attributable to the inbreeding of the hen, embryo and mate. No such effect was observed in the other lines. 5. In all lines inbreeding tended to reduce egg number and delay sexual maturity. In general, all lines reacted differently to inbreeding.

Animals↗

Dynamics of inbreeding depression due to deleterious mutations in small populations: mutation parameters and inbreeding rate.

A multilocus stochastic model is developed to simulate the dynamics of mutational load in small populations of various sizes. Old mutations sampled from a large ancestral population at mutation-selection balance and new mutations arising each generation are considered jointly, using biologically plausible lethal and deleterious mutation parameters. The results show that inbreeding depression and the number of lethal equivalents due to partially recessive mutations can be partly purged from the population by inbreeding, and that this purging mainly involves lethals or detrimentals of large effect. However, fitness decreases continuously with inbreeding, due to increased fixation and homozygosity of mildly deleterious mutants, resulting in extinctions of very small populations with low reproductive rates. No optimum inbreeding rate or population size exists for purging with respect to fitness (viability) changes, but there is an optimum inbreeding rate at a given final level of inbreeding for reducing inbreeding depression or the number of lethal equivalents. The interaction between selection against partially recessive mutations and genetic drift in small populations also influences the rate of decay of neutral variation. Weak selection against mutants relative to genetic drift results in apparent overdominance and thus an increase in effective size (Ne) at neutral loci, and strong selection relative to drift leads to a decrease in Ne due to the increased variance in family size. The simulation results and their implications are discussed in the context of biological conservation and tests for purging.

Animals↗

Ancestral inbreeding only minimally affects inbreeding depression in mammalian populations.

Inbreeding depression can be reduced, or purged, by selection against deleterious alleles. This prediction is the basis of the recommendation that captive wildlife populations suffering from inbreeding depression be intentionally bred from healthy inbred animals. Yet data on the effectiveness of purging inbreeding depression are few. In this study I present and use two different regression models (an ancestral inbreeding model and a lethal recessive model) to test for the presence of purging effects in 25 captive mammalian populations. Fitness components examined were neonatal survival, survival from neonate to weaning, and litter size. In only one species was purging statistically significant. However, 15 of 17 species that showed inbreeding depression exhibited a slight decline in inbreeding depression in neonatal survival among descendants of inbred animals. These results show a small but highly significant trend of purging on neonatal survival. No trends in purging effects were observed in weaning survival or litter size. The effects were not likely to be strong enough to be of practical use in eliminating inbreeding depression.

Animals↗

Inbreeding and prereproductive mortality in the Old Order Amish. I. Genealogic epidemiology of inbreeding.

Epidemiologic patterns of inbreeding in the Old Order Amish were investigated using a unique genealogic registry of Lancaster County, Pennsylvania, Amish that contains information on 8,163 marriages, dating back to the time of the pioneer migrants in the 1700s and spanning more than 10 generations. The kinship coefficient for each marriage was computed using the path method of tracing common ancestors in the multigenerational pedigrees. Because of extensive genealogic connections, mean kinship coefficients and the proportion of related marriages have increased significantly over time, from 0.004 and 37%, respectively, for marriages before 1850 to 0.012 and 98%, respectively, for marriages after 1950. Demographic factors related to higher kinship levels include young age at marriage, large sibship size for both husband and wife, husband being a farmer, and marriages occurring in the marriage season (November or December). The rise in inbreeding levels in the Amish over time can be uniquely contrasted with the decline in inbreeding in most areas of the world. Furthermore, because some of the demographic factors related to high inbreeding levels may be associated with levels of mortality, such factors have to be taken into account when studying the effects of inbreeding on mortality in the Amish. This study uses an epidemiologic approach to the evaluation of inbreeding patterns in a population over time.

Consanguinity↗

The estimation of inbreeding from isonymy: relationship to the average inbreeding coefficient.

The inbreeding coefficient estimated by the isonymy method is often much larger than the average inbreeding coefficient (FD). One reason commonly stated is that the surnames are polyphyletic in origin in such cases. The purpose of this paper is to examine the relationship between the inbreeding calculated from isonymy and the average inbreeding coefficient. It was found that when the level of inbreeding is low, especially when the random isonymy (Pr) is much larger than FD, or when the number of surnames is small (which results in a larger value of Pr), isonymy tends to grossly overestimate FD. A small number of surnames per se (not necessarily due to polyphyletic origin of surnames) will be likely to result in an unduly high estimate of inbreeding. The equations established are illustrated by numerical examples.

Consanguinity↗

Relationship between band sharing levels of DNA fingerprints and inbreeding coefficients and estimation of true inbreeding in turkey lines.

A regression analysis between band sharing of DNA fingerprints and calculated inbreeding coefficients was conducted using six experimental turkey lines. The DNA fingerprints were produced from 18 individual DNA samples per line representing different families. The DNA was digested with a HaeIII restriction enzyme and hybridized with Jeffreys' 33.6 probe. The band sharing within lines ranged from 0.42 to 0.62. The inbreeding coefficients of the lines were calculated based on population sizes and variation in family sizes. The inbreeding coefficients varied from 2.5 to 45%. Regression analysis between the two variables yielded a highly significant (P < or = 0.0001) linear model with a correlation coefficient of 0.992. The linear model was used to estimate the actual inbreeding in these lines.

Animals↗