Using numerical plant models and phenotypic correlation space to design achievable ideotypes

19 Groundnut ( Arachis hypogaea L. ) genotypes receiv ed from International Crops Research Institute for Semi Arid T ropics (ICRISA T) India w ere ev aluated in a non replicated trial and the characters w ere subjected to multiv ariate analysis to study the v ariability within the genotypes. The first 5 axes of the principal component analysis captured 78% of the total v ariability and identified yield parameters such as number of pods per plant, pod w eight per plant and growth parameters such as number of branches per plant, plant spread, and pod characteristics as the characters contributing most to total v ariation. Phenotypic correlation analysis rev ealed that the yield has positiv e correlation with the characters such as number of pods per plant and number of branches per plant. W ards clustering method has grouped the genotypes into 3 distinct clusters. The results can be applied in order to strengthen the breeding program

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Realized Sampling Variances of Estimates of Genetic Parameters and the Difference Between Genetic and Phenotypic Correlations

Genetics ◽

10.1093/genetics/143.3.1409 ◽

1996 ◽

Vol 143 (3) ◽

pp. 1409-1416 ◽

Cited By ~ 1

Author(s):

Kenneth R Koots ◽

John P Gibson

Keyword(s):

Genetic Correlation ◽

Genetic Parameters ◽

Genetic Parameter ◽

Genetic Correlations ◽

Phenotypic Correlation ◽

Parameter Estimates ◽

Sampling Variance ◽

Phenotypic Correlations ◽

Genetic And Phenotypic Correlations ◽

Heritability Estimates

Abstract A data set of 1572 heritability estimates and 1015 pairs of genetic and phenotypic correlation estimates, constructed from a survey of published beef cattle genetic parameter estimates, provided a rare opportunity to study realized sampling variances of genetic parameter estimates. The distribution of both heritability estimates and genetic correlation estimates, when plotted against estimated accuracy, was consistent with random error variance being some three times the sampling variance predicted from standard formulae. This result was consistent with the observation that the variance of estimates of heritabilities and genetic correlations between populations were about four times the predicted sampling variance, suggesting few real differences in genetic parameters between populations. Except where there was a strong biological or statistical expectation of a difference, there was little evidence for differences between genetic and phenotypic correlations for most trait combinations or for differences in genetic correlations between populations. These results suggest that, even for controlled populations, estimating genetic parameters specific to a given population is less useful than commonly believed. A serendipitous discovery was that, in the standard formula for theoretical standard error of a genetic correlation estimate, the heritabilities refer to the estimated values and not, as seems generally assumed, the true population values.

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Genetic Influences on the Covariance and Genetic Correlations in a Bivariate Twin Model: An Application to Well-Being

Behavior Genetics ◽

10.1007/s10519-021-10046-y ◽

2021 ◽

Author(s):

Lianne P. de Vries ◽

Toos C. E. M. van Beijsterveldt ◽

Hermine Maes ◽

Lucía Colodro-Conde ◽

Meike Bartels

Keyword(s):

Complex Traits ◽

Educational Achievement ◽

Genetic Correlations ◽

Well Being ◽

Genetic Influences ◽

Phenotypic Correlation ◽

Twin Model ◽

Twin Models ◽

Adolescent Twins ◽

Depressed Symptoms

AbstractThe distinction between genetic influences on the covariance (or bivariate heritability) and genetic correlations in bivariate twin models is often not well-understood or only one is reported while the results show distinctive information about the relation between traits. We applied bivariate twin models in a large sample of adolescent twins, to disentangle the association between well-being (WB) and four complex traits (optimism, anxious-depressed symptoms (AD), aggressive behaviour (AGG), and educational achievement (EA)). Optimism and AD showed respectively a strong positive and negative phenotypic correlation with WB, the negative correlation of WB and AGG is lower and the correlation with EA is nearly zero. All four traits showed a large genetic contribution to the covariance with well-being. The genetic correlations of well-being with optimism and AD are strong and smaller for AGG and EA. We used the results of the models to explain what information is retrieved based on the bivariate heritability versus the genetic correlations and the (clinical) implications.

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Exploring Two Honey Bee Traits for Improving Resistance Against Varroa destructor: Development and Genetic Evaluation

Insects ◽

10.3390/insects12030216 ◽

2021 ◽

Vol 12 (3) ◽

pp. 216

Author(s):

Matthieu Guichard ◽

Benoît Droz ◽

Evert W. Brascamp ◽

Adrien von Virag ◽

Markus Neuditschko ◽

...

Keyword(s):

Apis Mellifera ◽

Honey Bee ◽

Honey Bees ◽

Varroa Destructor ◽

Field Trial ◽

Genetic Evaluation ◽

Phenotypic Correlation ◽

Apis Mellifera Mellifera ◽

Novel Traits ◽

Resistance Traits

For the development of novel selection traits in honey bees, applicability under field conditions is crucial. We thus evaluated two novel traits intended to provide resistance against the ectoparasitic mite Varroa destructor and to allow for their straightforward implementation in honey bee selection. These traits are new field estimates of already-described colony traits: brood recapping rate (‘Recapping’) and solidness (‘Solidness’). ‘Recapping’ refers to a specific worker characteristic wherein they reseal a capped and partly opened cell containing a pupa, whilst ‘Solidness’ assesses the percentage of capped brood in a predefined area. According to the literature and beekeepers’ experiences, a higher recapping rate and higher solidness could be related to resistance to V. destructor. During a four-year field trial in Switzerland, the two resistance traits were assessed in a total of 121 colonies of Apis mellifera mellifera. We estimated the repeatability and the heritability of the two traits and determined their phenotypic correlations with commonly applied selection traits, including other putative resistance traits. Both traits showed low repeatability between different measurements within each year. ‘Recapping’ had a low heritability (h2 = 0.04 to 0.05, depending on the selected model) and a negative phenotypic correlation to non-removal of pin-killed brood (r = −0.23). The heritability of ‘Solidness’ was moderate (h2 = 0.24 to 0.25) and did not significantly correlate with resistance traits. The two traits did not show an association with V. destructor infestation levels. Further research is needed to confirm the results, as only a small number of colonies was evaluated.

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Relationship between Temperament and Stage of Lactation, Productivity and Milk Composition of Dairy Cows

Animals ◽

10.3390/ani11071840 ◽

2021 ◽

Vol 11 (7) ◽

pp. 1840

Author(s):

Ramūnas Antanaitis ◽

Vida Juozaitienė ◽

Vesta Jonike ◽

Vytenis Čukauskas ◽

Danguolė Urbšienė ◽

...

Keyword(s):

Milk Fat ◽

Genetic Correlations ◽

Subclinical Mastitis ◽

Milk Composition ◽

Cow Milk ◽

Phenotypic Correlation ◽

Protein Ratio ◽

Stage Of Lactation ◽

Milk Urea ◽

Milk Performance

The aim of this study was to assess the relationship between temperament and milk performance in cows at different stages of lactation, describing their productivity, metabolic status and resistance to mastitis. This study showed that with increasing lactation, cows’ temperament indicators decreased (p < 0.001) and they became calmer. The highest temperament score on a five-point scale was found in cows between 45 and 100 days of lactation. In the group of pregnant cows, we found more cows (p = 0.005) with a temperament score of 1–2 compared with non-pregnant cows A normal temperament was usually detected in cows with lactose levels in milk of 4.60% or more and when the somatic cell count (SCC) values in cow milk were <100,000/mL and 100,000–200,000/mL, with a milk fat-to-protein ratio of 1.2. A larger number of more sensitive and highly aggressive cows was detected at a low milk urea level. In contrast to a positive phenotypic correlation (p < 0.05), this study showed a negative genetic correlation between the temperament of cows and milk yield (p < 0.001). Positive genetic correlations between temperament scores and milk somatic cells (p < 0.001) and milk fat-to-protein ratio (p < 0.05) were found to indicate a lower genetic predisposition in cows with a calmer temperament to subclinical mastitis and ketosis. On the other hand, the heritability of temperament (h2 = 0.044–0.100) showed that only a small part of the phenotypic changes in this indicator is associated with genetic factors.

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Cross-disorder analysis of schizophrenia and 19 immune-mediated diseases identifies shared genetic risk

Human Molecular Genetics ◽

10.1093/hmg/ddz145 ◽

2019 ◽

Vol 28 (20) ◽

pp. 3498-3513 ◽

Cited By ~ 15

Author(s):

Jennie G Pouget ◽

Buhm Han ◽

Yang Wu ◽

Emmanuel Mignot ◽

Hanna M Ollila ◽

...

Keyword(s):

Risk Factors ◽

Ulcerative Colitis ◽

Crohn’S Disease ◽

Crohn's Disease ◽

Genetic Risk ◽

Genetic Risk Factors ◽

Phenotypic Correlation ◽

Biliary Cirrhosis ◽

Genome Wide ◽

Shared Genetic

Abstract Many immune diseases occur at different rates among people with schizophrenia compared to the general population. Here, we evaluated whether this phenomenon might be explained by shared genetic risk factors. We used data from large genome-wide association studies to compare the genetic architecture of schizophrenia to 19 immune diseases. First, we evaluated the association with schizophrenia of 581 variants previously reported to be associated with immune diseases at genome-wide significance. We identified five variants with potentially pleiotropic effects. While colocalization analyses were inconclusive, functional characterization of these variants provided the strongest evidence for a model in which genetic variation at rs1734907 modulates risk of schizophrenia and Crohn’s disease via altered methylation and expression of EPHB4—a gene whose protein product guides the migration of neuronal axons in the brain and the migration of lymphocytes towards infected cells in the immune system. Next, we investigated genome-wide sharing of common variants between schizophrenia and immune diseases using cross-trait LD score regression. Of the 11 immune diseases with available genome-wide summary statistics, we observed genetic correlation between six immune diseases and schizophrenia: inflammatory bowel disease (rg = 0.12 ± 0.03, P = 2.49 × 10−4), Crohn’s disease (rg = 0.097 ± 0.06, P = 3.27 × 10−3), ulcerative colitis (rg = 0.11 ± 0.04, P = 4.05 × 10–3), primary biliary cirrhosis (rg = 0.13 ± 0.05, P = 3.98 × 10−3), psoriasis (rg = 0.18 ± 0.07, P = 7.78 × 10–3) and systemic lupus erythematosus (rg = 0.13 ± 0.05, P = 3.76 × 10–3). With the exception of ulcerative colitis, the degree and direction of these genetic correlations were consistent with the expected phenotypic correlation based on epidemiological data. Our findings suggest shared genetic risk factors contribute to the epidemiological association of certain immune diseases and schizophrenia.

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Thiopurine methyltransferase activity: new conditions for reversed-phase high-performance liquid chromatographic assay without extraction and genotypic–phenotypic correlation

Journal of Chromatography B ◽

10.1016/s1570-0232(02)00130-7 ◽

2002 ◽

Vol 773 (2) ◽

pp. 119-127 ◽

Cited By ~ 26

Author(s):

Dany Anglicheau ◽

Sylvia Sanquer ◽

Marie-Anne Loriot ◽

Philippe Beaune ◽

Eric Thervet

Keyword(s):

High Performance ◽

High Performance Liquid Chromatographic ◽

Reversed Phase ◽

Phenotypic Correlation ◽

Thiopurine Methyltransferase ◽

Methyltransferase Activity ◽

Liquid Chromatographic

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Breeding against dothistroma needle blight of radiata pine in Australia

Canadian Journal of Forest Research ◽

10.1139/x10-097 ◽

2010 ◽

Vol 40 (8) ◽

pp. 1653-1660 ◽

Cited By ~ 17

Author(s):

Miloš Ivković ◽

Brian Baltunis ◽

Washington Gapare ◽

Jo Sasse ◽

Gregory Dutkowski ◽

...

Keyword(s):

Significant Proportion ◽

Radiata Pine ◽

Age And Growth ◽

Phenotypic Correlation ◽

Residual Variance ◽

Narrow Sense Heritability ◽

Economic Analyses ◽

Dothistroma Needle Blight ◽

Pinus Spp ◽

Needle Blight

Pine needle blight, caused by Dothistroma septosporum (Dorog.) M. Morelet, is one of the most serious foliar diseases of Pinus spp. in Australia and New Zealand. In 16 Pinus radiata (D.Don.) progeny trials in northeastern Victoria, Australia, Dothistroma-caused defoliation varied widely among trials and assessment years, ranging from 5% to 65%. The estimated narrow sense heritability ranged from nonsignificant to as high as 0.69 with a median of 0.36. Spatial autocorrelation of residuals accounted for a significant proportion of residual variance, and that increased heritability estimates. Genetic correlation between defoliation scores at an early age and growth at a later age was negative with a median value of –0.39. Phenotypic correlation between defoliation and survival was low and negative with a median value of –0.11. Economic analyses indicated that at sites with a high risk of infection, the effect of reducing defoliation on profitability was comparable with that of increasing growth at sites free from infection. The genetic parameters and economic impacts of Dothistroma were used to derive selection indices and include resistance to defoliation into the current breeding objective for radiata pine.

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Twin Study of the Relationship between Childhood Negative Emotionality and Hyperactivity/Inattention Problems

Twin Research and Human Genetics ◽

10.1017/thg.2021.5 ◽

2021 ◽

Vol 24 (1) ◽

pp. 7-13

Author(s):

Yoon-Mi Hur ◽

Hoe-Uk Jeong

Keyword(s):

Genetic Factors ◽

Environmental Influences ◽

Model Fitting ◽

Negative Emotionality ◽

Phenotypic Correlation ◽

Environmental Correlation ◽

South Korean ◽

Telephone Interviews ◽

Opposite Sex ◽

The Relationship

AbstractThe present study aimed to determine the genetic and environmental etiology of the association between childhood negative emotionality (NE) and hyperactivity/inattention problems (HIP) using South Korean elementary school twins (mean age = 10.19 years, SD = 1.79 years). Telephone interviews were given to mothers of 919 twins (229 monozygotic males: 112 pairs and 5 individuals; 148 dizygotic males: 73 pairs and 2 individuals; 180 monozygotic females: 87 pairs and 6 individuals; 103 dizygotic females: 50 pairs and 3 individuals; 259 opposite-sex dizygotic twins: 127 pairs and 5 individuals) to assess their children’s NE and HIP. Consistent with prior studies, the phenotypic correlation between NE and the HIP was moderate (r = .29; 95% CI = .24, .34). Model-fitting analysis revealed that additive genetic and nonshared environmental influences on NE were .45 (95% CI [.34, .54]) and .55 (95% CI [.46, .66]), respectively, and that additive and nonadditive genetic, and nonshared environmental influences on HIP were .08 (95% CI [.03, .26]), .41 (95% CI [.21, .51]) and .51 (95% CI = .42, .61), respectively. In addition, the additive genetic correlation between NE and HIP was 1.0 (95% CI [.52, 1.00]), indicating that additive genetic factors are entirely shared between the two phenotypes. Nonadditive genetic influences were unique to HIP and not responsible for the NE-HIP association. Nonshared environmental correlation was significant but modest (re = .18, 95% CI [.06, .30]).

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