GWAS in a Collection of Bulgarian Old and Modern Bread Wheat Accessions Uncovers Novel Genomic Loci for Grain Protein Content and Thousand Kernel Weight

Genetic enhancement of grain production and quality is a priority in wheat breeding projects. In this study, we assessed two key agronomic traits-grain protein content (GPC) and thousand kernel weight (TKW)-across 179 Bulgarian contemporary and historic varieties and landraces across three growing seasons. Significant phenotypic variation existed for both traits among genotypes and seasons, and no discernible difference was evident between the old and modern accessions. To understand the genetic basis of the traits, we conducted a genome-wide association study with MLM using phenotypic data from the crop seasons, best linear unbiased estimators, and genotypic data from the 25K Infinium iSelect array. As a result, we detected 16 quantitative trait nucleotides (QTNs) associated with GPC and 15 associated with TKW, all of which passed the false discovery rate threshold. Seven loci favorably influenced GPC, resulting in an increase of 1.4% to 8.1%, while four loci had a positive impact on TKW with increases ranging from 1.9% to 8.4%. While some loci confirmed previously published associations, four QTNs linked to GPC on chromosomes 2A, 7A, and 7B, as well as two QTNs related to TKW on chromosomes 1B and 6A, may represent novel associations. Annotations for proteins involved in the senescence-associated nutrient remobilization and in the following buildup of resources required for seed germination have been found for selected putative candidate genes. These include genes coding for storage proteins, cysteine proteases, cellulose-synthase, alpha-amylase, transcriptional regulators, and F-box and RWP-RK family proteins. Our findings highlight promising genomic regions for targeted breeding programs aimed at improving grain yield and protein content.

Nutritional Genomic Approach for Improving Grain Protein Content in Wheat

Grain protein content (GPC) is a key aspect of grain quality, a major determinant of the flour functional properties and grain nutritional value of bread wheat. Exploiting diverse germplasms to identify genes for improving crop performance and grain nutritional quality is needed to enhance food security. Here, we evaluated GPC in a panel of 255 Triticum aestivum L. accessions from 27 countries. GPC determined in seeds from three consecutive crop seasons varied from 8.6 to 16.4% (11.3% on average). Significant natural phenotypic variation in GPC among genotypes and seasons was detected. The population was evaluated for the presence of the trait-linked single nucleotide polymorphism (SNP) markers via a genome-wide association study (GWAS). GWAS analysis conducted with calculated best linear unbiased estimates (BLUEs) of phenotypic data and 90 K SNP array using the fixed and random model circulating probability unification (FarmCPU) model identified seven significant genomic regions harboring GPC-associated markers on chromosomes 1D, 3A, 3B, 3D, 4B and 5A, of which those on 3A and 3B shared associated SNPs with at least one crop season. The verified SNP-GPC associations provide new promising genomic signals on 3A (SNPs: Excalibur_c13709_2568 and wsnp_Ku_c7811_13387117) and 3B (SNP: BS00062734_51) underlying protein improvement in wheat. Based on the linkage disequilibrium for significant SNPs, the most relevant candidate genes within a 4 Mbp-window included genes encoding a subtilisin-like serine protease; amino acid transporters; transcription factors; proteins with post-translational regulatory functions; metabolic proteins involved in the starch, cellulose and fatty acid biosynthesis; protective and structural proteins, and proteins associated with metal ions transport or homeostasis. The availability of molecular markers within or adjacent to the sequences of the detected candidate genes might assist a breeding strategy based on functional markers to improve genetic gains for GPC and nutritional quality in wheat.

The effects of putrescine pre-treatment on osmotic stress responses in drought-tolerant and drought-sensitive wheat seedlings

Recent studies have demonstrated that exogenous polyamines have protective effects under various stress condition. A broader understanding of the role of the polyamine pool fine regulation and the alterations of polyamine-related physiological processes could be obtained by comparing the stress effects in different genotypes. In this study, the impact of pre-treatment with putrescine in response to osmotic stress was investigated in the drought-tolerant Katya and drought-sensitive Zora wheat (Triticum aestivum) cultivars. Photosynthetic performance, in vivo thermoluminescence emission from leaves, leaf temperature, polyamine and salicylic acid levels, contents of osmoprotectants, and activities of antioxidant enzymes in the leaves were investigated not only to reveal differences in the physiological processes associated to drought tolerance, but to highlight the modulating strategies of polyamine metabolism between a drought-tolerant and a drought-sensitive wheat genotype. Results showed that the tolerance of Katya under osmotic stress conditions was characterized by higher photosynthetic ability, stable charge separation across the thylakoid membrane in photosystem II, higher proline accumulation and antioxidant activity. Thermoluminescence also revealed differences between the two varieties - a downshift of the B band and an increase of the afterglow band under osmotic stress in Zora, providing original complementary information to leaf photosynthesis. Katya variety exhibited higher constitutive levels of the signaling molecules putrescine and salicylic acid compared to the sensitive Zora. However, responses to exogenous putrescine were more advantageous for the sensitive variety under PEG treatment, which may be in relation with the decreased catabolism of polyamines, suggesting the increased need for polyamine under stress conditions.

Nitrogen assimilation and photosynthetic capacity of wheat genotypes under optimal and deficient nitrogen supply

The performance of two contrasting Bulgarian wheat varieties (Slomer, an old tall cultivar, and Enola, a modern semi-dwarf one) to nitrogen deficiency was compared by measuring biochemical parameters characterizing N uptake and assimilation as well as growth and photosynthetic activity of young seedlings. The old genotype displayed better photosynthetic capacity, higher N assimilation expressed by elevated amino acid synthesis and better overall performance under N limitation. This could be explained by the fact that selection of old varieties was performed mostly in environments with low nutrient availability and consequently these genotypes proved to be more suitable for growing on low-input conditions. Upon limiting N supply modern variety preferentially accumulated sugars while the old one retained higher amino acids levels. It was demonstrated that processes involved in N metabolism were tightly interrelated with photochemical reactions and carbon assimilation even at early developmental stage.

Effects of cadmium on two wheat cultivars depending on different nitrogen supply

Heavy metal pollution as well as improper fertilization management represent serious threats to a clean environment and healthy food. This study was conducted to investigate how nitrogen supply influences a plant's ability to cope with cadmium stress in the two wheat cultivars - the modern cv. Katya (carrier of the semi-dwarfing gene Rht8) and the old cv. Slomer. Here we examined the effects of 100 μM CdCl₂ on both wheat genotypes grown hydroponically under three different nutrition regimes of 5.5, 10 and 20 mM NO₃^- by investigating plant growth, pigment content and the functional activity of the photosynthetic apparatus through a combination of PAM chlorophyll fluorescence, P700 photooxidation, oxygen evolution and oxidative stress markers. Data showed that the different genetic background affects the different strategies for metal uptake and allocation, as well as abilities to deal with oxidative stress. The modern cv. Katya restricts the entry of the metal to the roots, but allows its translocation to the shoots. Nevertheless, the photosynthetic performance indicated better protection, possibly mediated by the Rht8 allele. In contrast, the old cv. Slomer tolerates higher cadmium levels in roots and possesses efficient barriers against its transfer to the shoots, but still showed more impaired photosynthetic activity. In general, the impact of cadmium on the photosynthetic apparatus was most deleterious under the lowest nitrogen concentration which was applied, while the highest nitrogen supply alleviated the negative effects of cadmium. The data suggest that the modern breeding allele (Rht8), as well as a better nutrition might contribute to the tolerance to heavy metal stress in the wheat.

Transient Heat Waves May Affect the Photosynthetic Capacity of Susceptible Wheat Genotypes Due to Insufficient Photosystem I Photoprotection

We assessed the photosynthetic responses of eight wheat varieties in conditions of a simulated heat wave in a transparent plastic tunnel for one week. We found that high temperatures (up to 38 °C at midday and above 20 °C at night) had a negative effect on the photosynthetic functions of the plants and provided differentiation of genotypes through sensitivity to heat. Measurements of gas exchange showed that the simulated heat wave led to a 40% decrease in photosynthetic activity on average in comparison to the control, with an unequal recovery of individual genotypes after a release from stress. Our results indicate that the ability to recover after heat stress was associated with an efficient regulation of linear electron transport and the prevention of over-reduction in the acceptor side of photosystem I.

Wheat plant selection for high yields entailed improvement of leaf anatomical and biochemical traits including tolerance to non-optimal temperature conditions

Assessment of photosynthetic traits and temperature tolerance was performed on field-grown modern genotype (MG), and the local landrace (LR) of wheat (Triticum aestivum L.) as well as the wild relative species (Aegilops cylindrica Host.). The comparison was based on measurements of the gas exchange (A/c_i, light and temperature response curves), slow and fast chlorophyll fluorescence kinetics, and some growth and leaf parameters. In MG, we observed the highest CO₂ assimilation rate [Formula: see text] electron transport rate (J_max) and maximum carboxylation rate [Formula: see text]. The Aegilops leaves had substantially lower values of all photosynthetic parameters; this fact correlated with its lower biomass production. The mesophyll conductance was almost the same in Aegilops and MG, despite the significant differences in leaf phenotype. In contrary, in LR with a higher dry mass per leaf area, the half mesophyll conductance (g_m) values indicated more limited CO₂ diffusion. In Aegilops, we found much lower carboxylation capacity; this can be attributed mainly to thin leaves and lower Rubisco activity. The difference in CO₂ assimilation rate between MG and others was diminished because of its higher mitochondrial respiration activity indicating more intense metabolism. Assessment of temperature response showed lower temperature optimum and a narrow ecological valence (i.e., the range determining the tolerance limits of a species to an environmental factor) in Aegilops. In addition, analysis of photosynthetic thermostability identified the LR as the most sensitive. Our results support the idea that the selection for high yields was accompanied by the increase of photosynthetic productivity through unintentional improvement of leaf anatomical and biochemical traits including tolerance to non-optimal temperature conditions.