scholarly journals What Can We Learn from an Early Test on the Adaptation of Silver Fir Populations to Marginal Environments?

Forests ◽  
2018 ◽  
Vol 9 (7) ◽  
pp. 441 ◽  
Author(s):  
Marcin Klisz ◽  
Krzysztof Ukalski ◽  
Joanna Ukalska ◽  
Szymon Jastrzębowski ◽  
Radosław Puchałka ◽  
...  
Keyword(s):  
Mixed Model ◽  
Linear Mixed Model ◽  
Site Effect ◽  
Height Growth ◽  
Climatic Conditions ◽  
Silver Fir ◽  
Environment Interaction ◽  
Marginal Environments ◽  
The Stability ◽  
Marginal Environment

In order to determine the adaptive potential of silver fir in the southeast of Poland, the stability of the height of its five-year-old progeny was analyzed. The study was conducted in two different population groups in a total of four environments, including one ecologically marginal environment. The linear mixed model was used to evaluate the differentiation of populations in terms of height growth. The genotype and genotype-by-environment interaction biplot (GGE) were used to verify the stability of height. The climate of populations origin, in relation to actual fir distribution in Poland, was verified based on principal components analysis (PCA) of bioclimatic parameters. The highest total variability was explained by the genotype-environment interaction effect (GE) (54.50%), while the genotype effect (G) explained 41.27% and only 4.23% was explained by the site effect. The result of height growth variations revealed the Komańcza site as the most representative among study sites, while the Lesko site characterized the highest discriminating ability. The progeny occurring in climatic conditions most different from the average testing conditions showed a heterogeneous growth reaction, only adapting to the marginal environment, while the progeny of the second population in this region as well as the northernmost one was characterized by a mean but stable growth. The westernmost population revealed maladaptation. The assessment of the adaptability of silver fir depends on the broad spectrum of test conditions considering the ecologically marginal environments.

scholarly journals Identification of genetic loci affecting body mass index through interaction with multiple environmental factors using structured linear mixed model

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Hae-Un Jung ◽  
Won Jun Lee ◽  
Tae-Woong Ha ◽  
Ji-One Kang ◽  
Jihye Kim ◽  
...  
Keyword(s):  
Body Mass Index ◽  
Environmental Factors ◽  
Body Mass ◽  
Bayes Factor ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Interaction Analysis ◽  
Carbohydrate Intake ◽  
Calorie Intake ◽  
Environment Interaction

AbstractMultiple environmental factors could interact with a single genetic factor to affect disease phenotypes. We used Struct-LMM to identify genetic variants that interacted with environmental factors related to body mass index (BMI) using data from the Korea Association Resource. The following factors were investigated: alcohol consumption, education, physical activity metabolic equivalent of task (PAMET), income, total calorie intake, protein intake, carbohydrate intake, and smoking status. Initial analysis identified 7 potential single nucleotide polymorphisms (SNPs) that interacted with the environmental factors (P value < 5.00 × 10−6). Of the 8 environmental factors, PAMET score was excluded for further analysis since it had an average Bayes Factor (BF) value < 1 (BF = 0.88). Interaction analysis using 7 environmental factors identified 11 SNPs (P value < 5.00 × 10−6). Of these, rs2391331 had the most significant interaction (P value = 7.27 × 10−9) and was located within the intron of EFNB2 (Chr 13). In addition, the gene-based genome-wide association study verified EFNB2 gene significantly interacting with 7 environmental factors (P value = 5.03 × 10−10). BF analysis indicated that most environmental factors, except carbohydrate intake, contributed to the interaction of rs2391331 on BMI. Although the replication of the results in other cohorts is warranted, these findings proved the usefulness of Struct-LMM to identify the gene–environment interaction affecting disease.

scholarly journals A Fumonisin Prevention Tool for Targeting and Ranking Agroclimatic Conditions Favoring Exposure in French Maize-Growing Areas

Toxins ◽  
2021 ◽  
Vol 13 (3) ◽  
pp. 214
Author(s):  
Agathe Roucou ◽  
Christophe Bergez ◽  
Benoît Méléard ◽  
Béatrice Orlando
Keyword(s):  
Mixed Model ◽  
Linear Mixed Model ◽  
Fusarium Verticillioides ◽  
Agricultural Practices ◽  
Climatic Conditions ◽  
Agricultural Cooperatives ◽  
Mixed Model Approach ◽  
Food And Feed ◽  
Model Approach

The levels of fumonisins (FUMO)—mycotoxins produced by Fusarium verticillioides—in maize for food and feed are subject to European Union regulations. Compliance with the regulations requires the targeting of, among others, the agroclimatic factors influencing fungal contamination and FUMO production. Arvalis-Institut du végétal has created a national, multiyear database for maize, based on field survey data collected since 2003. This database contains information about agricultural practices, climatic conditions and FUMO concentrations at harvest for 738 maize fields distributed throughout French maize-growing regions. A linear mixed model approach highlights the presence of borers and the use of a late variety, high temperatures in July and October, and a water deficit during the maize cycle as creating conditions favoring maize contamination with Fusarium verticillioides. It is thus possible to target a combination of risk factors, consisting of this climatic sequence associated with agricultural practices of interest. The effects of the various possible agroclimatic combinations can be compared, grouped and classified as promoting very low to high FUMO concentrations, possibly exceeding the regulatory threshold. These findings should facilitate the creation of a national, informative and easy-to-use prevention tool for producers and agricultural cooperatives to manage the sanitary quality of their harvest.

scholarly journals Height Growth of Korean Pine Seedlings Planted under Strip-Cut Larch Plantations in Northeast China

2015 ◽  
Vol 2015 ◽  
pp. 1-10 ◽  
Author(s):  
Toshiaki Owari ◽  
Shinichi Tatsumi ◽  
Liangzhi Ning ◽  
Mingfang Yin
Keyword(s):  
Northeast China ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Height Growth ◽  
Pinus Koraiensis ◽  
Stand Age ◽  
Seedling Height ◽  
Korean Pine ◽  
Open Site ◽  
Pine Seedlings

To develop two-storied forest management of larch plantations in Northeast China, this study examined the height growth of Korean pine (Pinus koraiensisSieb. et Zucc.) seedlings planted under strip-cut larch canopies. We measured the height growth of the underplanted seedlings 4 years after planting. The larch canopies were of varying stand age (12, 17, and 37 years) and strip-cut width (4.5, 6.0, and 7.5 m). We measured the seedling height growth in an open site (i.e., a site with no canopy). Underplanted seedlings had a smaller height growth (12.1–20.1 cm year−1) than the seedlings planted in the open site (23.7 cm year−1). The seedlings underplanted in the wider strip-cuts tended to have greater height growth than the seedlings underplanted in the narrowest strip-cuts. A generalized linear mixed model analysis predicted the greatest seedling height growth in the open site. A 36–47% reduction in annual height growth was predicted for the narrowest strip-cuts (4.5 m) versus the open site, while a 13–36% reduction in annual height growth was predicted for the wider strip-cuts (6.0–7.5 m) versus the open site. To maintain adequate height growth, forest managers are recommended to create wider strip-cuts (i.e., ≥6.0 m) for the purpose of underplanting Korean pine seedlings in larch plantations.

scholarly journals Linear Mixed Models

2022 ◽  
pp. 141-170
Author(s):  
Osval Antonio Montesinos López ◽  
Abelardo Montesinos López ◽  
Jose Crossa
Keyword(s):  
Parameter Estimation ◽  
Maximum Likelihood ◽  
Mixed Models ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Linear Mixed Models ◽  
Prediction Performance ◽  
Environment Interaction ◽  
Model Framework ◽  
Genotype Environment Interaction

AbstractThe linear mixed model framework is explained in detail in this chapter. We explore three methods of parameter estimation (maximum likelihood, EM algorithm, and REML) and illustrate how genomic-enabled predictions are performed under this framework. We illustrate the use of linear mixed models by using the predictor several components such as environments, genotypes, and genotype × environment interaction. Also, the linear mixed model is illustrated under a multi-trait framework that is important in the prediction performance when the degree of correlation between traits is moderate or large. We illustrate the use of single-trait and multi-trait linear mixed models and provide the R codes for performing the analyses.

Genotype × environment interaction in Norway spruce involving three levels of genetic control: seed source, clone mixture, and clone

1988 ◽  
Vol 18 (9) ◽  
pp. 1172-1181 ◽  
Author(s):  
B. G. Bentzer ◽  
G. S. Foster ◽  
A. R. Hellberg ◽  
A. C. Podzorski
Keyword(s):  
Genetic Control ◽  
Genetic Correlations ◽  
Negative Relationship ◽  
Height Growth ◽  
Regression Coefficients ◽  
Environment Interaction ◽  
Control Seed ◽  
Genotype Environment Interaction ◽  
The Stability ◽  
Average Individual

A total of 913 Piceaabies (L.) Karst. clones was tested for height at ages 1 and 5 in two series on six and three locations, respectively, in Sweden. The genotype × environment interaction was studied for three levels of genetic control, i.e., seedling checklot, clone mixture, and clone. Stability of all three was estimated using regression coefficients. The alternative method, genetic correlation between locations, was also used to measure stability. Height differences among seedling checklots and among clones were substantial at age 5, while the variation among clone mixtures was not significant. Genotype × environment interaction was found to be significant for clones and accounted for an average of 2.1% of the total variance at age 5. No significant interaction was found between mixtures and locations. The genotype × environment interaction for seedling checklots was not significant and accounted for 0.5% of the total variation at age 5. The stability of seedling checklots at age 5 was high. For the clone mixtures, stability was found to be about average. Individual clones showed wide variation in stability. There was an apparent negative relationship between clone performance and stability. Genetic correlations indicated close agreement between locations in the ranking of clones for height growth.

Impact of Climatic Conditions on Physical Activity: A 2-Year Cohort Study in the Arabian Gulf Region

2016 ◽  
Vol 13 (9) ◽  
pp. 929-937 ◽  
Author(s):  
Abdulla S. Al-Mohannadi ◽  
Abdulaziz Farooq ◽  
Angus Burnett ◽  
Mercia Van Der Walt ◽  
Mohamed Ghaith Al-Kuwari
Keyword(s):  
Physical Activity ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Cohort Analysis ◽  
Arabian Gulf ◽  
Climatic Conditions ◽  
World Health ◽  
Gulf Region ◽  
Arabian Gulf Region ◽  
Temperature And Humidity

Background:Little is known about the effects that climatic conditions, especially extreme heat, have on physical activity (PA) levels. The aim of this 2-year cohort analysis undertaken in the Arabian Gulf region was to assess changes in objectively-assessed PA as a result of changes in climatic conditions.Methods:A total of 2088 adults (1390 men and 698 women) from many regions of the world were enrolled in a community health program in Qatar, were included in this study. For 2 years participants recorded daily step count using an Omron HJ-720 ITC pedometer. Daily climate parameters included temperature, relative humidity and other conditions.Results:From linear mixed model analysis it was evident that higher average temperature and humidity, and the Wet bulb Globe Temperature (WbGT), resulted in a reduction of the number of steps taken per day. Analysis of interaction effects also revealed that the effects of heat stress were equivalent across gender, age, and the region participants came from according to a World Health Organization classification scheme.Conclusions:Increased temperature and humidity are associated with a reduction in the number of steps taken per day. Community-based PA programs in hot hot/humid climates should consider novel approaches to increase PA levels.

scholarly journals Influence of Climate on Carbon Sequestration in Conifers Growing under Contrasting Hydro-Climatic Conditions

Forests ◽  
2020 ◽  
Vol 11 (11) ◽  
pp. 1134
Author(s):  
Andrea Cecilia Acosta-Hernández ◽  
Jaime Roberto Padilla-Martínez ◽  
José Ciro Hernández-Díaz ◽  
José Angel Prieto-Ruiz ◽  
José Rodolfo Goche-Telles ◽  
...  
Keyword(s):  
Climate Changes ◽  
Drought Index ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Climatic Variability ◽  
Climatic Conditions ◽  
Carbon Accumulation ◽  
Climatic Variables ◽  
Ecological Functions ◽  
Carbon Cycles

Research Highlights: Analyzing the contrasting ecological gradients makes it easier to understand the influence of climate on carbon accumulation. Background and Objectives: The increasing climatic variability has implications for vegetation, impacting on its ecological functions, among which carbon accumulation stands out. In the present study, we used climate-dendrochronology relationships to evaluate carbon accumulation in two conifer species that grow in contrasting humidity sites: Pinus strobiformis Engelm (mesic sites) and Pinus leiophylla var. chihuahuana (Engelm.) Shaw (arid sites). Materials and Methods: Using a dendrochronological approach, we estimated the correlation of biomass and carbon accumulation of each species with some climatic variables (temperature, precipitation, and a drought index) and generated a linear mixed model. Results: The response in carbon accumulation between species with respect to climate was significantly different. P. strobiformis showed a positive correlation with the climatic variables analyzed, while in P. leiophylla the correlation was negative, except with precipitation. Conclusions: These results show that forests in both mesic and arid sites are prone to climate changes, although their responses are different, impacting the productivity and carbon cycles of forest ecosystems.

scholarly journals Age and diet shape the genetic architecture of body weight in Diversity Outbred mice

2020 ◽  
Author(s):  
Kevin M. Wright ◽  
Andrew Deighan ◽  
Andrea Di Francesco ◽  
Adam Freund ◽  
Vladimir Jojic ◽  
...  
Keyword(s):  
Body Weight ◽  
Genetic Architecture ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Environment Interaction ◽  
Dependent Manner ◽  
Dietary Interventions ◽  
Functional Variants ◽  
Diversity Outbred ◽  
Age Dependent

AbstractUnderstanding how genetic variation shapes an age-dependent complex trait relies on accurate quantification of both the additive genetic effects and genotype-environment interaction effects in an age-dependent manner. We used a generalization of the linear mixed model to quantify diet-dependent genetic contributions to body weight and growth rate measured from early development through adulthood of 960 Diversity Outbred female mice subjected to five dietary interventions. We observed that heritability of body weight remained substantially high (h2 ≈ 0.8) throughout adulthood under the 40% calorie restriction diet, while heritability, although still appreciably high, declined with age under all other dietary regimes. We identified 14 loci significantly associated with body weight in an age-dependent manner and 19 loci that contribute to body weight in an age- and diet-dependent manner. We found the effect of body weight alleles to be dynamic with respect to genomic background, age, and diet, identifying the scope of pleiotropy and several instances of allelic heterogeneity. In many cases, we fine-mapped these loci to narrow genomic intervals containing a few genes and impute putative functional variants from the genome sequence of the DO founders. Of the loci associated with body weight in a diet-dependent manner, many have been previously linked to neurological function and behavior in mice or humans. These results enable us to more fully understand the dynamics of the genetic architecture of body weight with age and in response to different dietary interventions, and to predict the effectiveness of dietary intervention on overall health in distinct genetic backgrounds.

scholarly journals Evaluation of stability in maize hybrids using univariate parametric methods

2021 ◽  
Author(s):  
Seyed Habib Shojaei ◽  
Khodadad Mostafavi ◽  
Amirparviz Lak ◽  
Ali Omrani ◽  
Saeed Omrani ◽  
...  
Keyword(s):  
Grain Yield ◽  
Climatic Conditions ◽  
High Yield ◽  
Environment Interaction ◽  
Average Yield ◽  
Stability Parameters ◽  
Environmental Variance ◽  
Maize Hybrids ◽  
Genotype Environment Interaction ◽  
The Stability

AbstractGenotype × environment interaction is one of the complex issues of breeding programs to produce high-yielding and compatible cultivars. Interaction of genotype × environment and make the more accurate selection, the performance and stability of hybrids need to be considered simultaneously. This study aimed to investigate stable genotypes with yield using 12 maize hybrids in different climatic conditions of Iran. The experimental design used was a randomized complete blocks design in three replications in two cropping years in Karaj, Birjand, Shiraz, and Arak stations. The simple analysis of variance performed on grain yield of genotypes indicated that all hybrids studied each year and station were significantly different in grain yield. Also, the combined analysis results showed a significant effect on the environment, the effects of genotype, and the interaction of genotype × environment and t in the studied hybrids different. Comparing Duncan's mean on the data obtained from the research, KSC705 genotypes with an average yield of 7.21 and KSC704 genotype with an average yield of 7.04 were identified as high yield cultivars. In order to identify stable cultivars, six stability parameters were used. KSC260 and KSC707 genotypes had stability Based on the environmental variance, also had stability based KSC705, KSC707 genotype on environmental the coefficient of variation, and KSC260 genotypes had stability based methods of genotype and environment interaction. As well as based on Eberhart and Russell regression coefficient had the stability to KSC400 and SC647 genotypes. Also, they were identified as the most stable genotypes based on the detection coefficient method, KSC707, and KSC703 genotypes.

Sign in / Sign up

Export Citation Format

Share Document