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QTL×QTL×QTL Interaction Effects for Total Phenolic Content of Wheat Mapping Population of CSDH Lines under Drought Stress by Weighted Multiple Linear Regression
This paper proposes the use of weighted multiple linear regression to estimate the triple3interaction (additive×additive×additive) of quantitative trait loci (QTLs) effects. The use of unweighted regression yielded an improvement (in absolute value) in the QTL×QTL×QTL interaction effects compared to assessment based on phenotypes alone in three cases (severe drought in 2010, control in 2012 and severe drought in 2012). In contrast, weighted regression yielded an improvement (in absolute value) in the evaluation of the aaagw parameter compared to aaap in five cases, with the exception of severe drought in 2012. The results show that by using weighted regression on marker observations, the obtained estimates are closer to the ones obtained by the phenotypic method. The coefficients of determination for the weighted regression model were significantly higher than for the unweighted regression and ranged from 46.2% (control in 2010) to 95.0% (control in 2011). Considering this, it is clear that a three-way interaction had a significant effect on the expression of quantitative traits.
Improving the Selection Efficiency of Breeding Material within Interspecific Brassicaceae Hybrids with Genomic Prediction and Phenotyping
Various molecular markers can be applied to accelerate the breeding process of Brassicaceae plants. The aim of the present study was to assess the usefulness of available markers connected to blackleg resistance and to screen for markers linked to genes influencing major morphological characteristics, suitable for the further selection of Brassicaceae hybrids. Combining the field and molecular results allowed for the selection of useful SSR markers, including mstg004 and mstg027 markers connected to the color of the flowers and marker mstg038 associated with stem color. The field trails were also conducted to investigate the level of blackleg resistance, which permitted the selection of rapeseed hybrids with B. fruticulosa, B. carinata, and S. alba exhibiting the lowest infestation. Furthermore, the functionality of some of the resistance-linked markers was confirmed. The importance of interspecific hybridization and the use of marker-assisted selection are discussed, and the high utility of presented markers in further studies is highlighted.
A Comparison of Methods to Estimate Additive–by–Additive–by–Additive of QTL×QTL×QTL Interaction Effects by Monte Carlo Simulation Studies
The goal of the breeding process is to obtain new genotypes with traits improved over the parental forms. Parameters related to the additive effect of genes as well as their interactions (such as epistasis of gene–by–gene interaction effect and additive–by–additive–by–additive of gene–by–gene–by–gene interaction effect) can influence decisions on the suitability of breeding material for this purpose. Understanding the genetic architecture of complex traits is a major challenge in the post-genomic era, especially for quantitative trait locus (QTL) effects, QTL–by–QTL interactions and QTL–by–QTL–by–QTL interactions. With regards to the comparing methods for estimating additive–by–additive–by–additive of QTL×QTL×QTL interaction effects by Monte Carlo simulation studies, there are no publications in the open literature. The parameter combinations assumed in the presented simulation studies represented 84 different experimental situations. The use of weighted regression may be the preferred method for estimating additive–by–additive–by–additive of QTL–QTL–QTL triples interaction effects, as it provides results closer to the true values of total additive–by–additive–by–additive interaction effects than using unweighted regression. This is also indicated by the obtained values of the determination coefficients of the proposed models.
Rola nanocząstek w odpowiedzi obronnej łubinu żółtego (Lupinus luteus L.) na Fusarium oxysporum f. sp. lupini
Podatność odmian owsa (Avena sativa L.) na porażenie przez Drechslera avenae (helmintosporioza owsa) i jej wpływ na plon
Leaf spot of oat caused by the fungus Pyrenophora chaetomioides Speg. (Drechslera avenae anamorph) (Eidam) (Scharif) is one of the most harmful and widespread diseases of oat. Field experiments were carried out in 2012–2016 in breeding fields in Kopaszewo. The aim of the study was to assess the susceptibility of oat cultivars to the infestation of D. avenae and to determine its influence on the yield. The incidence of the disease was dependent on the variety and varied between the study years, indicating the effect of a variation × year interaction. However, no statistical differences were found between the varieties of a given form. The cultivar least infested by the fungus D. avenae was the naked cultivar Nagus. In the group of hulled varieties Bingo and Zuch showed the highest resistant. The highest yield value was obtained in cultivation of the Arden hulled variety.
Genotype-environment interaction for grain yield in maize (Zea mays L.) using the additive main effects and multiplicative interaction (AMMI) model
AbstractGenotype-environment interaction consists of the different response of individual genotypes resulting from changing environmental conditions. Its significance is a phenomenon that makes the breeding process very difficult. On the one hand, the breeder expects stable genotypes, i.e., yielding similarly regardless of environmental conditions. On the other hand, selecting the best genotypes for each region is one of the key challenges for breeders and farmers. The aim of this study was to evaluate genotype-by-environment interaction for grain yield in new maize hybrids developed by Plant Breeding Smolice Co. Ltd., utilizing the additive main effects and multiplicative interaction (AMMI) model. The investigation involved 69 maize (Zea mays L.) hybrids, tested across five locations in a randomized complete block design with three replications. Grain yield varied from 8.76 t ha–1 (SMH_16417 in Smolice) to 16.89 t ha–1 (SMH_16043 in Płaczkowo), with a mean yield of 13.16 t ha–1. AMMI analysis identified significant effects of genotype, environment, and their interaction on grain yield. Analysis of variance indicated that 25.12% of the total variation in grain yield was due to environment factor, 35.20% to genotypic differences, and 21.18% to genotype by environmental interactions. Hybrids SMH_1706 and SMH_1707 are recommended for further breeding programs due to their high stability and superior average grain yield.
Genetic diversity and population structure of Iranian oak (Quercus spp.) accessions based on ISSR and CBDP markers
Effect of Vicia sativa L. on Motility, Mortality and Expression Levels of hsp Genes in J2 Stage of Meloidogyne hapla
Abstract Assuming that the seeds of Vicia sativa L. have a stressful effect on J2 stage Meloidogyne hapla, we undertook research on the effect of these seeds on the motility and mortality of J2 and determined the expression levels of selected hsp genes in J2. The assessment of the effect of V. sativa seeds on the motility of M. hapla specimens consisted of observing the movement of J2 immersed in a seed diffusate or in a tomato root filtrate at temperatures of 10, 17, and 21°C. In J2 treated with V. sativa (cv. Ina) seed diffusates, the expression level of hsp genes was determined by qPCR. J2 exposed to V. sativa diffusates were found to lose their motility, while their mortality did not exceed 30%. J2 in the seed diffusate were characterized by an increase in the expression levels of the Mh-hsp90, Mh-hsp1, and Mh-hsp43 genes. It is suggested that the hsp90 gene may be a potential bioindicator of the environmental impact on Meloidogyne nematodes. The impaired ability to move in J2 of M. hapla is attributable to the occurrence of V. sativa seeds in their habitat. These studies may contribute to developing methods of reducing crop damage caused by M. hapla.
Physiological and molecular responses of bread wheat and its wild relative species to drought stress
Effect of Different Plant Growth-Promoting Rhizobacteria on Biological Soil Properties, Growth, Yield and Quality of Oregano (Origanum onites L.)
Intensive agriculture uses continuous chemical fertilizers to increase crop yields, but excessive use of fertilizers leads to environmental pollution, permanent changes in physicochemical conditions in soil ecology, deterioration of soil biological health, leaching of nutrients, surface and groundwater pollution and eutrophication. Plant growth-promoting rhizobacteria (PGPR) are becoming increasingly important for ensuring crop safety, increasing nutrient uptake and output, lowering fertilizer costs, preventing environmental contamination and promoting sustainable agriculture and agricultural resources. Therefore, the purpose of this study was to identify and evaluate the effects of fifteen bacteria strains that were isolated from various acidic rhizospheric soils as biofertilizers on soil biological properties. Growth, yield and quality traits were analyzed, and various PGPR were identified using 16S ribosomal RNA of Turkish oregano. Fifteen bacterial inoculations with 1-aminocyclopropane-1-carboxylate (ACC) deaminase, N2-fixing, P-solubilizing and/or IAA-producing genes were used in the experiment, which was carried out in a randomized block design with five replicates (each with three pots) and a control without inoculation. Increased biological activity in soil inoculated with bacteria with multiple traits was confirmed by high C and N content in microbial biomass, urease, dehydrogenase and acid and alkaline phosphatase activities. Essential oil content, oil yield, thymol and carvacrol contents increased by 0.5–40.1%, 5.9–71.9%, 0.07–16.7% and 0.3–9.2%, respectively, as a result of bacterial inoculation. Oil content ranged from 2.02% to 2.83%; carvacrol (66.1–72.2%) was the main constituent, followed by thymol (14.5–16.9%) and linalool (1.38–3.68%). Two large PGPR groups were formed based on genetic distance analysis. Responses were variable and depended on the inoculant strain and the parameters being evaluated. The results indicate PGPR has clear potential for improving the yield of cultivated aromatic and essential oil plants, such as oregano.
Comparison of Six Measures of Genetic Similarity of Interspecific Brassicaceae Hybrids F2 Generation and Their Parental Forms Estimated on the Basis of ISSR Markers
Genetic similarity determines the extent to which two genotypes share common genetic material. It can be measured in various ways, such as by comparing DNA sequences, proteins, or other genetic markers. The significance of genetic similarity is multifaceted and encompasses various fields, including evolutionary biology, medicine, forensic science, animal and plant breeding, and anthropology. Genetic similarity is an important concept with wide application across different scientific disciplines. The research material included 21 rapeseed genotypes (ten interspecific Brassicaceae hybrids of F2 generation and 11 of their parental forms) and 146 alleles obtained using 21 ISSR molecular markers. In the presented study, six measures for calculating genetic similarity were compared: Euclidean, Jaccard, Kulczyński, Sokal and Michener, Nei, and Rogers. Genetic similarity values were estimated between all pairs of examined genotypes using the six measures proposed above. For each genetic similarity measure, the average, minimum, maximum values, and coefficient of variation were calculated. Correlation coefficients between the genetic similarity values obtained from each measure were determined. The obtained genetic similarity coefficients were used for the hierarchical clustering of objects using the unweighted pair group method with an arithmetic mean. A multiple regression model was written for each method, where the independent variables were the remaining methods. For each model, the coefficient of multiple determination was calculated. Genetic similarity values ranged from 0.486 to 0.993 (for the Euclidean method), from 0.157 to 0.986 (for the Jaccard method), from 0.275 to 0.993 (for the Kulczyński method), from 0.272 to 0.993 (for the Nei method), from 0.801 to 1.000 (for the Rogers method) and from 0.486 to 0.993 (for the Sokal and Michener method). The results indicate that the research material was divided into two identical groups using any of the proposed methods despite differences in the values of genetic similarity coefficients. Two of the presented measures of genetic similarity (the Sokal and Michener method and the Euclidean method) were the same.
The use of weighted multiple linear regression to estimate QTL × QTL × QTL interaction effects of winter wheat (Triticum aestivum L.) doubled-haploid lines
AbstractKnowledge of the magnitude of gene effects and their interactions, their nature, and contribution to determining quantitative traits is very important in conducting an effective breeding program. In traditional breeding, information on the parameter related to additive gene effect and additive-additive interaction (epistasis) and higher-order additive interactions would be useful. Although commonly overlooked in studies, higher-order interactions have a significant impact on phenotypic traits. Failure to account for the effect of triplet interactions in quantitative genetics can significantly underestimate additive QTL effects. Understanding the genetic architecture of quantitative traits is a major challenge in the post-genomic era, especially for quantitative trait locus (QTL) effects, QTL–QTL interactions, and QTL–QTL–QTL interactions. This paper proposes using weighted multiple linear regression to estimate the effects of triple interaction (additive–additive–additive) quantitative trait loci (QTL–QTL–QTL). The material for the study consisted of 126 doubled haploid lines of winter wheat (Mandub × Begra cross). The lines were analyzed for 18 traits, including percentage of necrosis leaf area, percentage of leaf area covered by pycnidia, heading data, and height. The number of genes (the number of effective factors) was lower than the number of QTLs for nine traits, higher for four traits and equal for five traits. The number of triples for unweighted regression ranged from 0 to 9, while for weighted regression, it ranged from 0 to 13. The total aaagu effect ranged from − 14.74 to 15.61, while aaagw ranged from − 23.39 to 21.65. The number of detected threes using weighted regression was higher for two traits and lower for four traits. Forty-nine statistically significant threes of the additive-by-additive-by-additive interaction effects were observed. The QTL most frequently occurring in threes was 4407404 (9 times). The use of weighted regression improved (in absolute value) the assessment of QTL–QTL–QTL interaction effects compared to the assessment based on unweighted regression. The coefficients of determination for the weighted regression model were higher, ranging from 0.8 to 15.5%, than for the unweighted regression. Based on the results, it can be concluded that the QTL–QTL–QTL triple interaction had a significant effect on the expression of quantitative traits. The use of weighted multiple linear regression proved to be a useful statistical tool for estimating additive-additive-additive (aaa) interaction effects. The weighted regression also provided results closer to phenotypic evaluations than estimator values obtained using unweighted regression, which is closer to the true values.
Genistein and Aphid Probing Behavior: Case Studies on Polyphagous Aphid Species
(1) Background: Genistein is a naturally occurring flavonoid with a rich spectrum of biological activities, including plant-herbivore interactions. The aim of the study was to evaluate the effect of exogenous application of genistein on aphid behavior during probing in plant tissues. (2) Methods: Vicia faba, Brassica rapa ssp. pekinensis, and Avena sativa were treated transepidermally with a 0.1% ethanolic solution of genistein, and the probing behavior of generalist aphid species Aphis fabae, Myzus persicae, and Rhopalosiphum padi was monitored on their respective treated and untreated host plants using electropenetrography (=electrical penetration graph technique, EPG); (3) Results: Genistein did not deter aphid probing activities in non-phloem tissues. In A. fabae and R. padi, a trend towards reduction and in M. persicae a trend towards increase in phloem sap ingestion occurred on genistein-treated plants, but these trends were not statistically significant. (4) Conclusions: Genistein is not a deterrent chemical against generalist aphid species studied; therefore, it is not recommended for practical application.
Green Leaf Volatile Function in Both the Natural Defense System of Rumex confertus and Associated Insects’ Behavior
Rumex confertus is a rhizomatous, invasive, and difficult to control plant. Nevertheless, for sustainable agriculture, studies to biologically control R. confertus continue. Towards this, considerable attention has been devoted to investigating the emission of a wide array of volatile organic compounds (VOCs) from herbivore-damaged plants, which are known to induce protection measures in neighboring, undamaged plants. The goals of this study are to (1) determine if the profile of green leaf volatiles (GLVs), which are organic compounds naturally produced by undamaged plants, is similar to that provoked by the chemical stimulants Z-jasmone (ZJA) and dihydrojasmone (DJA), (2) establish if the Apion miniatum beetle’s reproductive choices are influenced by their sex and mating status, and (3) assess if chemically stimulated GLV emissions can be used as signals to attract pests to R. confertus for biological control purposes. Synthetic forms of naturally produced Z-jasmone (ZJA) and dihydrojasmone (DJA), which can act as either an attractant or a repellent of various species of insects, were used to treat R. confertus. In olfactory analysis, the behavioral responses of individual insects to mated and unmated insects and to two GLV blends were evaluated. It was found that unmated male insects were fairly equally divided between going for food (Y-tube olfactometer arm with a GLV blend) and opportunities for reproduction (Y-tube olfactometer arm with unmated females). However, an increase in the GLV blend concentration attracted the insects. Meanwhile, unmated females were definitely indifferent to food and, independent of the GLV blend dose, were more interested in reproduction. Mated males, even with weak feed stimuli, increased their reproduction activity, in opposition to mated females. We provide evidence that synthetic GLV blends can be used to attract predators, making their use an effective means to biologically control R. confertus. The idea of applying synthetic GLVs as a biological control is based on the insects’ mutual relationships, which work as follows: (i) mated males fully invade the weed, (ii) reproduction-driven females follow the mated males to R. confertus, and (iii) the unmated males follow the females with the purpose to reproduce. Therefore, all insect groups (mated and unmated males and females) can be induced to invade the weed. Upon feeding, the insects will damage the generative organs of R. confertus. We propose that the use of chemical stimulants to increase GLV emissions can be effectively used for weed (here R. confertus) control by attracting a plant pest (here A. miniatum).
Monitoring and Signaling of the Most Important Aphid Species in the Territory of Greater Poland and Silesia Provinces
Aphids are significant pests affecting crop yields both through direct feeding and as vectors of viruses. The monitoring focused on 10 of the most important aphid species. This study investigates the dynamics of aphid populations in two Polish regions, Winna Góra (Greater Poland Province) and Sośnicowice (Silesia Province), over a five-year period (2019–2023) using Johnson suction traps. Data collection covered species composition, migration timing, and seasonal variations in aphid abundance. Dominance patterns were assessed using a species-specific index, and inter-regional comparisons were analyzed through correlation and principal component analysis. Results indicate notable population peaks during autumn, suggesting this period is optimal for implementing control measures. The Johnson traps proved valuable for timely pest monitoring, offering predictive potential for future aphid migration, particularly in relation to virus-transmitting species critical to plants.
Meta-Analysis of Influence of Diversity of Parental Forms on Heterosis and Specific Combining Ability of Their Hybrids
An important stage in any breeding activity is selection of suitable individuals for further breeding. Thus, the main goal of breeders becomes such a selection of parental forms that leads to the consolidation and maximization of the value of traits of significant utility and economic importance. Heterosis and specific combining ability are very important parameters in plant and animal breeding. The ability to predict their value and relevance could significantly shorten the breeding process. One way to predict the effects of heterosis and specific combining ability is to select parental forms for crosses. This selection can be made on the basis of variation in parental forms. An analysis was made of publicly available data that contain information about the effects of heterosis, the effects of specific combining ability, and phenotypic and genetic diversity of parental forms. Preliminary studies show that the best approach for obtaining favorable hybrids would be selection of parental forms that are very genetically diverse while being phenotypically equal.
Effect of cover crops and soil tillage methods for sowing spring wheat (Triticum aestivum L.) on selected soil physical properties
Analysis of Linkage on Interaction of Main Aspects (Genotype by Environment Interaction, Stability and Genetic Parameters) of 1000 Kernels in Maize (Zea mays L.)
The assessment of 1000-kernel weight holds significant importance in determining maize grain yield, and elucidating its underlying genetic mechanisms is imperative for enhancing its overall performance. The material for the study consisted of 26 doubled-haploid (DH) maize lines obtained from crossing two cultivars with flint kernels. Lines were planted in the northern part of the Lower Silesia voivodship in Poland over ten years (2013–2022). The 1000-kernel weight was assessed. The purposes of the research were as follows: (1) to assess genotype by environment interaction (GEI by the additive main effects and multiplicative interaction (AMMI) model; (2) the selection of stable DH lines and environment-specific lines; and (3) the estimation of parameters related to additive and additive–additive gene interaction (epistasis). The results indicate the significant effects of genotype and environment, as well as the GEI, on the 1000-kernel weight. Estimates of additive gene action effects were statistically significant in every year of the study, except 2022. Estimates of epistasis (total additive-by-additive interaction) effects for 1000-kernel weight were statistically significant in 2013, 2015, and 2017 (positive effects), as well as in 2018 and 2020 (negative effects). The lines KN07 and KN10 are recommended for further inclusion in the breeding program due to their stability and highest average of 1000-kernel weight.
Revealing Genetic Diversity and Population Structure in Türkiye’s Wheat Germplasm Using iPBS-Retrotransposon Markers
Investigating the genetic diversity and population structure of wheat germplasm is crucial for understanding the underlying variability essential for breeding programs and germplasm preservation. This research aims to contribute novel insights with respect to the genetic makeup and relationships among these wheat genotypes, shedding light on the diversity present within the Turkish wheat germplasm. In this study, iPBS-retrotransposon markers were employed to analyze 58 wheat genotypes, encompassing 54 landraces and 4 cultivars sourced from Türkiye. These markers serve as genetic indicators that can be used to evaluate genetic variation, build genealogical trees, and comprehend evolutionary connections. The PCR products were visualized on agarose gel, and bands were scored as present/absent. The ten iPBS primers collectively yielded an average of 16.3 alleles, generating a total of 163 polymorphic bands. The number of alleles produced by individual markers ranged from 4 (iPBS-2386) to 29 (iPBS-2219). The genetic parameters were calculated using the popgen and powermarker programs. The genetic relationships and population structures were assessed using the ntsys and structure programs. Polymorphism information content (PIC) per marker varied from 0.13 (iPBS-2390) to 0.29 (iPBS-2386), with an average value of 0.22. Shannon’s information index (I) was calculated as 1.48, while the number of effective alleles (Ne) and Nei’s genetic diversity (H) were determined to be 0.26 and 0.31, respectively. Genotype numbers 3 (Triticum dicoccum) and 10 (Triticum monococcum) exhibited the maximum genetic distance of 0.1292, signifying the highest genetic disparity. Population structure analysis revealed the segregation of genotypes into three distinct subpopulations. Notably, a substantial portion of genotypes clustered within populations correlated with the wheat species. This population structure result was consistent with the categorization of genotypes based on wheat species. The comprehensive assessment revealed noteworthy insights with respect to allele distribution, polymorphism content, and population differentiation, offering valuable implications for wheat breeding strategies and germplasm conservation efforts. In addition, the iPBS markers and wheat genotypes employed in this study hold significant potential for applications in wheat breeding research and germplasm preservation.
