Search Results (2,125)

Mechanical transplanting often causes root damage to rice seedlings, but its yield impacts in double-cropping systems remain unclear. A two-year field experiment was conducted in early- and late-season rice under three root damage treatments: no damage (CK), mild root damage (T1, seedling roots pruned to 2 cm), and severe root damage (T2, seedling roots pruned to 1 cm). Results showed that T2 reduced early-season rice yield by 8% but had no significant effect on late-season rice, while T1 did not affect yield in either season. In early-season rice, the yield loss was associated with reduced pre-heading biomass (BM_Pre) and total biomass (both 13% lower than CK), primarily due to decreases of 5–32% in SPAD, leaf area index, specific leaf weight, pre-heading crop growth rate, and leaf area duration, with no post-heading compensation. In contrast, late-season rice sustained yield despite a 9% reduction in BM_Pre (attributed to similar leaf trait reductions of 4–26%) by enhancing post-heading biomass (16% increase), driven by a 17% increase in post-heading crop growth rate and an 11% decrease in the rate of leaf area decline. Partial least squares path modeling confirmed that biomass dynamics, rather than yield components, constituted the primary pathway linking root damage to yield. These results demonstrate that the impact of root damage is season-dependent, highlighting the need for root protection in early-season rice and the exploitation of compensatory capacity in late-season rice to optimize mechanical transplanting practices. Full article

Background: Grain length is a key determinant of yield and quality in barley (Hordeum vulgare L.) and is typically governed by complex quantitative traits. Methods: In this study, a diverse natural population comprising 198 barley accessions was evaluated across two years to investigate the genetic basis of grain length. Results: Phenotypic analysis revealed continuous variation with near-normal distribution, indicating polygenic control. Genome-wide association study (GWAS) identified 84 stable single nucleotide polymorphism (SNP) loci significantly associated with grain length, predominantly enriched on chromosome 7. RNA sequencing (RNA-seq) was conducted using two contrasting genotypes at four developmental stages. Differentially expressed genes (DEGs) were mainly enriched in structural constituent of chromatin, protein heterodimerization activity, and the starch and sucrose metabolism. Integration of GWAS and RNA-seq identified 7 key candidate genes seven key candidate genes, including LOC123412467, LOC123408579, LOC123407599, LOC123410619, LOC123410954, LOC123411868, and LOC123426274. Sequence variation analysis further revealed functional polymorphisms, including non-synonymous mutations. The sequencing results show that LOC123412467 and LOC123410619 exhibited consistent allelic variation between long-grain and short-grain accessions, while LOC123426274 displayed stable differential expression across developmental stages, indicating their potential roles as key genes controlling grain length. Conclusions: Collectively, these findings suggest that chromosome 7 contains major regulatory loci controlling barley grain length and demonstrate that integrative multi-omics analysis is an effective strategy for identifying high-confidence candidate genes associated with complex agronomic traits. This study provides valuable insights into the genetic basis of grain length and offers key candidate genes for barley molecular breeding. Full article

The development of new corn varieties is necessary to meet the corn demand. Using full diallel crosses is a method for developing high-yielding hybrid corn. This development requires systematic selection methods that incorporate various approaches in developing selection indices. This study aimed to develop a selection index concept for two full diallel cross populations and select potential hybrid crosses for preliminary yield evaluation. The study involved two populations of 100 corn seed genotypes from full diallel crosses (90 F₁ genotypes and 10 selfing elders) and five check varieties per population, planted using a Type II Augmented RCBD in eight blocks. Agronomic characteristics were analyzed using analysis of variance, heritability, factor analysis, and path analysis, with selection criteria aligned with heterotic potential, specific combining analysis, and heterobeltiosis. Analysis revealed significant genetic variation and moderate-to-high heritability for most traits. Correlation, factor, and path analyses identified cob diameter, number of rows per cob, and seeds per row as optimal selection criteria. Selection indices were developed by integrating standard heterosis, specific combining ability, and heterobeltiosis, with weights based on heritability and direct effects. Forty-four hybrid crosses showed potential for preliminary yield tests, with seven having the best final index compared to the reference variety. The p17 × p23 cross had the best potential for the final index. This study demonstrates the effectiveness of integrating multivariate analysis and selection indices in developing superior hybrid corn crosses. Further optimization is recommended through preliminary yield tests and molecular approaches. Full article

The Northwest soybean production region (covering Shanxi, Shaanxi, Gansu, Ningxia, Xinjiang, central and western Inner Mongolia and northern parts of Hebei) possesses vast cultivated land resources and advantageous light–temperature conditions, endowing soybean with substantial yield potential. In this study, two natural soybean populations originating from this region were used to systematically investigate the phenotypic variation in two important agronomic traits, plant height (PH) and main stem node number (NN). The results showed abundant genetic variation for both traits. Through genome-wide association analysis (GWAS) and employing a joint detection across multi-environments (control false positives), 5 SNPs significantly associated with PH and 18 SNPs significantly associated with NN were identified, among which four SNPs were detected associated with both traits. Candidate genes were further screened within the ±100 kb intervals flanking lead SNPs at association peaks. By integrating gene expression levels of different soybean tissues and their correlations with the phenotypes, two candidate genes associated with both PH and NN were determined. These findings provide a theoretical basis for the identification and utilization of soybean germplasm resources in Northwest China, and lay a solid foundation for breeding high-yield and high-quality soybean varieties through molecular breeding. Full article

The genus Cucurbita (pumpkin), encompassing C. maxima and C. moschata, is agriculturally and nutritionally significant globally. Herein, we re-sequenced 146 germplasm accessions (51 C. moschata and 95 C. maxima) to characterize genomic variations and identify loci associated with critical traits. Population structure analysis revealed four distinct subgroups: G1 (C. moschata), and G2–G4 (C. maxima), the latter classified by rind color (green, gray, and red, respectively). A genome-wide association study (GWAS) analysis identified 26 loci associated with eight fruit quality traits (e.g., rind color, pulp thickness, starch content) and leaf traits. Selective sweep analyses revealed 18 overlapping signals between the GWAS and selective regions, highlighting convergent evolution in starch content, pulp thickness, and water content driven by artificial and natural selection. We further validated these key fruit quality candidate genes, confirming that starch, cellulose, and pulp trait-related genes exhibited genotype-specific expression consistent with the quality divergence between CMO-X and CMO-E. Notably, C. moschata exhibited higher β-carotene and water content, while C. maxima showed higher starch content, reflecting divergent selection pressures. For leaf traits, 13 loci associated with leaf length were found, including LL9.2/LW9.1 with Cmax09G001045, which regulates leaf size. A novel haplotype in Cmax09G001045 explained the small-leaf phenotype of ‘Cuili 5’. This study provides a comprehensive genomic variation map of C. maxima and C. moschata, clarifies the genetic bases of key agronomic traits, and sheds light on their domestication and selection history, offering valuable resources for molecular breeding and crop improvement. Full article

Based on SLAF-seq technology, 174 white clover accessions were analyzed using population structure and genetic evolution to develop SNP markers of all accessions. We obtained 2329.4 Mb reads of sequenced data, and the reads of the samples ranged from 4,701,984 to 31,540,232. The sequencing quality value (Q30) uniformly changed from 90.61% to 96.82%, with an average of 93.11%. The GC content of the samples changed from 38.96% to 43.98%, averaging 40.96%, with a control of 34.21%. A total of 320,417 SLAF tags were developed, with an average sequencing depth of 16.42×. There were 202,625 polymorphic SLAF tags, accounting for 63.24% of the total number of SLAF tags. Finally, 2,999,555 polymorphic SNPs were found, and 102,025 high-quality SNPs were selected for downstream analyses after filtering with minor allele frequency (MAF) > 0.05 and completeness > 0.5. Population structure analysis supported K = 2, indicating two major ancestral genetic backgrounds among the accessions. Phylogenetic analysis and principal component analysis further divided the accessions into three genetic subclusters, suggesting finer-scale genetic differentiation. In addition, one-way ANOVA and chi-squared tests revealed a significant association between genetic groups and geographic origin (χ² = 25.78, df = 8, p = 0.0012; F = 3.489, p = 0.032), provided limited evidence for a possible association between genetic grouping and geographic origin. Compared with photosynthetic traits, agronomic traits showed a broader range of variations, with coefficient of variance values for agronomic traits ranging from 24.59% to 139.02% and for photosynthetic traits from 4.29% to 78.57%. This difference suggests that morphological traits were highly differentiated among the 174 accessions. The consistency between phenotypic clustering (based on agronomic traits) and molecular clustering (based on SNP data) suggests that our SNP dataset captures biologically meaningful genetic variation, providing a solid foundation for future genome-wide association studies (GWASs) and marker-assisted selection (MAS) in white clover. Full article

Brown midrib (bmr) mutants are frequently associated with unfavorable agronomic traits. In this study, we identified a novel brown midrib mutant, bmr34, which exhibited distinct brown coloration in roots, stems, and leaf midribs. Although most classic bmr mutants show undesirable agronomic performance, this mutant displays altered lignin accumulation and has important potential for forage quality and biomass utilization, providing a key genetic resource for lignin regulatory research in sorghum. Compared to the wild-type, bmr34 showed no significant differences in five major agronomic traits; however, lignin content was significantly reduced. Bulked segregant analysis (BSA) using an F₂ population derived from a cross between bmr34 and the wild type Tx623 mapped the candidate region to chromosome 4. Further sequencing analysis identified a single nucleotide substitution (C → T; reverse strand G → A) at position 5,731,348 within the 5′ splice site of the third intron of Sobic.004G071000 in the mapping interval. KASP marker analysis demonstrated complete co-segregation between the mutation site and the bmr phenotype. Sequence analysis also revealed that this G → A substitution resulted in aberrant splicing and a 33-bp insertion in the third exon, which introduced a premature stop codon. Notably, the normally spliced transcript still accounted for approximately 36.2% of total transcripts in bmr34, indicating partial retention of wild-type transcript processing. These results demonstrate that bmr34 represents a novel weak allele of Bmr6, providing new insights into splice-site mutations and their contribution to lignin biosynthesis regulation in sorghum. Full article

To identify suitable silage maize varieties and optimal sowing dates for Aral in southern Xinjiang, 10 silage maize varieties were evaluated under three sowing date treatments (April 22, April 28, and May 6) from 2024 to 2025. Agronomic traits, yield components, and nutritional quality indices were systematically determined. Multivariate statistical methods were employed for comprehensive evaluation. The results indicated that sowing date, variety, and their interaction exerted highly significant effects on most key agronomic traits, yields, and nutritional quality indicators of silage maize (p < 0.01). The sowing date had markedly different regulatory effects on the traits studied. Sowing on April 22 was conducive to improving the yield and fiber quality of silage maize. Sowing on April 28 optimized agronomic traits, including the uppermost ear leaf area and stem diameter. Sowing on May 6 significantly increased the crude protein and starch contents of silage maize. Cluster analyses combined with membership function analysis identified Dajingjiu 26 and Yu Qingzhu 23 as varieties with consistently excellent comprehensive traits and strong adaptability to regional ecological conditions across all sowing dates. These two varieties are recommended for priority deployment in local silage maize production, combined with their corresponding optimal sowing dates, to achieve the simultaneous optimization of yield and quality. The findings provide theoretical support and practical reference for silage maize variety selection and sowing date optimization in similar climate regions. Full article

Micro- and nanoplastics (MPs/NPs) are increasingly recognized as persistent contaminants in agricultural systems, where repeated inputs from mulch films, biosolids, composts, irrigation water, and atmospheric deposition create sustained exposure pathways for crops. Although various studies report effects on crop growth and physiology, mechanistic interpretation remains limited because outcomes vary widely across experiments and are often discussed without appropriate attention to exposure context, particle properties, and evidentiary strength. This review advances an agroecosystem-centered, evidence-aware framework for interpreting how MPs/NPs influence crops from environmental entry to plant phenotype. We argue that crop responses cannot be inferred from polymer identity alone, but must be interpreted through the interacting effects of particle size, morphology, surface chemistry, weathering state, aggregation behavior, co-contaminant associations, and exposure matrix. Within this framework, crop responses are organized along a mechanistic chain linking environmental entry and plant contact, interface behavior at root and leaf surfaces, conditional barrier crossing and transport, ROS-centered stress signaling with hormonal and ionic regulation, and downstream effects on germination, root function, photosynthesis, biomass, productivity, and quality-related traits. Particular emphasis is placed on distinguishing surface association, supported internalization, and supported systemic translocation, because these categories carry distinct implications for edible-tissue occurrence, crop quality, and food-system relevance. Current evidence suggests that the soil–plant–food pathway is plausible and increasingly supported, but its interpretation remains constrained by uneven analytical rigor and limited field realism. Future progress will require realistic agricultural exposure designs, stronger polymer-specific confirmation, and closer integration of mechanistic evidence with agronomic and food-system endpoints. Full article

This study was conducted to evaluate regional variation in wheat traits within the same genetic background using the Korean-bred cultivar ‘Saekumkang’, thereby minimising genetic effects. Field trials were conducted across six major wheat-growing regions in Korea: Gyeongsangnam-do (GN), Gyeongsangbuk-do (GB), Jeollanam-do (JN), Jeollabuk-do (JB), Chungcheongnam-do (CN), and Chungcheongbuk-do (CB). Regional grain-filling environments were characterised using temperature, vegetation indices, and photosynthesis-related traits measured at approximately 20 days after anthesis. Differences in grain-filling environments and leaf physiological status were accompanied by variation in grain morphology, starch composition, and protein-related traits. Grain area was highest in GN (17.92 ± 0.33 mm²) and lowest in CB (13.41 ± 0.49 mm²). Total grain protein concentration was highest in GB (12.39 ± 3.70 mg/g) and lowest in JN (5.40 ± 1.93 mg/g), whereas total grain starch content was highest in GN (45.09 ± 0.33%) and lowest in CB (36.48 ± 0.22%). Principal component analysis and partial least squares discriminant analysis showed that grain size- and starch-related traits were mainly associated with GN, whereas photosystem II energy flux and protein-related traits were associated with CB or GB. These results indicate that regional grain-filling environments are closely associated with coordinated changes in leaf physiology, grain development, and starch- and protein-related quality traits within a single cultivar, providing baseline information for region-specific wheat quality management. Full article

Iris sanguinea features upright, stiff leaves, making it an excellent cut-foliage material, with its tall leaf architecture greatly enhancing ornamental value in landscaping. However, during the leaf expansion phase, plants frequently exhibit loose foliage arrangement, excessive spreading, and compromised mechanical strength, culminating in lodging and a concomitant decline in ornamental quality. Plant height in I. sanguinea is strongly regulated by phytohormones. This study showed that exogenous GA at concentrations of 50 mg·L⁻¹, 100 mg·L⁻¹, and 200 mg·L⁻¹ increased seedling height by 5.7%, 8.8%, and 12.7%, respectively, through foliar spraying on I. sanguinea seedlings grown ex vitro in a greenhouse; conversely, PAC treatment at equivalent concentrations suppressed growth by 19.3%, 21.0%, and 22.2%, respectively. Two pivotal GA signaling components, GAI and GID1a, were isolated from I. sanguinea. Subcellular localization confirmed that both IsGAI and IsGID1a proteins localize to the nucleus. Overexpression vectors pCAMBIA1300-IsGAI-GFP and pCAMBIA1300-IsGID1a-GFP were constructed and expressed in Arabidopsis thaliana. Transgenic lines overexpressing IsGAI showed significantly reduced plant height, hypocotyl elongation, and bolting, whereas IsGID1a overexpression promoted these traits. Exogenous GA application partially reversed the dwarf phenotype induced by IsGAI overexpression and further potentiated the height enhancement observed in IsGID1a-overexpressing lines. This study identifies two key genes controlling plant height and provides a theoretical basis and genetic resources for precisely engineering plant architecture in I. sanguinea. This is especially important for developing dwarf varieties with enhanced ornamental and agronomic traits, offering significant potential in the landscaping and cut flower industries. Full article

Lentils constitute a strategically important crop within sustainable agricultural systems, particularly in the context of rising global demand for plant-based protein sources. In Switzerland, approximately 95% of lentil seeds are imported, underscoring the untapped potential for domestic production. This study systematically evaluated the performance of multiple lentil genotypes, alongside optimal seeding densities and growing seasons, through a series of field experiments conducted over five years. In addition, a sensory evaluation was performed on 12 selected genotypes to assess consumer-relevant quality traits. The findings revealed substantial variability in yield among genotypes, ranging from 0.9 to 1.6 t/ha; however, interannual variation exerted a more pronounced influence, with yields fluctuating between 0.1 and 2.0 t/ha. Notably, autumn-sown lentils achieved yields of up to 2.7 t/ha in three out of four growing seasons, even among genotypes lacking full winter-hardiness, indicating significant production potential under appropriate management conditions. Optimal plant densities were identified within the range of 180–240 plants/m². From an economic standpoint, higher seeding densities appear justifiable, as the increased seed costs are offset by corresponding gains in yield. Since intercropping of lentils with oats did not negatively affect grain yield nor the thousand kernel weight, the benefits of this cropping system are highlighted. Sensory analysis demonstrated statistically significant differences in attributes such as mealiness and juiciness, leading to the classification of genotypes into three distinct sensory clusters. Despite these differences, overall sensory variation was relatively limited, suggesting that genotype selection may be guided primarily by agronomic performance, climatic adaptability, and winter-hardiness, as well as by market preferences for seed colour and size. Collectively, these results highlight the potential of autumn sowing as a viable strategy to enhance lentil production and reduce the risk of crop failure in Swiss agricultural systems. Full article

The increasing demand for resilient and multifunctional crops in the Mediterranean region has renewed interest in Urtica dioica L. as a potential alternative crop. This study evaluated the combined effects of fertilization and row spacing on the growth, yield, and nitrogen use efficiency of nettle in Athens, Greece. A split-plot experimental design was employed in a three-year experiment, with three fertilization treatments (C = control, U = urea, and I = urea with urease inhibitor) and two different row spacings (D1 = 30 cm × 20 cm, and D2 = 50 cm × 20 cm). Agronomic traits, seed yield, nitrogen content, vegetation indices (NDVI), chlorophyll content (SPAD), and nitrogen efficiency indices were assessed. Fertilization significantly enhanced plant performance, with the application of I consistently producing the highest values for plant height (increased by 10–30%), biomass (increased by 10–20%), and seed yield (increased up to 30%) compared to C. Row spacing influenced crop performance, with D2 favoring plant height (up to 9% compared to D1), while D1 generally increased biomass production per unit area (up to 20% compared to D2). Nitrogen-related indices (NUE, NAE, and NUtE) were markedly improved under fertilized treatments, particularly when I was applied (up to 20%, 100%, and 19% compared to U). NDVI and SPAD values were also influenced by fertilization and row spacing at early growth stages. The findings demonstrate that both factors play critical roles in optimizing nettle cultivation under Mediterranean conditions, highlighting the importance of integrated agronomic management practices. Full article

The reliable identification of productive and nutritionally valuable Bromus inermis Leyss. germplasm requires multi–year evaluation because forage performance is strongly influenced by genotype, stand age, and annual environmental variation. We evaluated four experimental genotypes and the cultivar WUSU as a control over three production years at a fixed alpine site on the Qinghai–Tibet Plateau. Agronomic traits, forage yield, dry matter accumulation, and nutritional quality were measured annually. A multi–criteria TOPSIS model was used to integrate yield and quality traits for genotype ranking, while random forest analysis and piecewise structural equation modeling were applied to identify key traits and potential pathways influencing forage performance. Genotype, year, and their interaction significantly affected most agronomic, yield, and nutritional traits. Most traits reached their highest values in the third production year, indicating that this stage was critical for evaluating full productive potential. Among the tested materials, genotype 4–4 showed consistently high biomass production and favorable nutritional performance, whereas WUSU and genotype 1–10 generally ranked lower. Plant height and grass height were positively associated with fresh and hay yield, while fresh forage yield, crude protein content, and stem diameter contributed strongly to model prediction. The SEM results suggested that genotype–year interaction influenced hay yield mainly through changes in stem diameter and acid detergent fiber content. These findings indicate that combining multi–year field evaluation with multi–criteria ranking and pathway analysis can improve the identification of promising B. inermis germplasm. Genotype 4–4 represents a useful candidate for further multi–site validation and breeding for high–yield, high–quality forage production in alpine regions. These findings provide a theoretical basis and candidate germplasm for the genetic improvement of Bromus inermis Leyss. adapted to the Qinghai–Tibet Plateau. Full article

Fruit endocarp and seed coat are essential protective structures that influence key agronomic and mechanical traits in species with lignified protective tissues, yet their regulatory mechanisms remain incompletely understood. Here, we conducted a comprehensive genome-wide analysis of the MADS-box gene family in four angiosperm species: Juglans sigillata, Carya illinoinensis, Macadamia integrifolia, and Ricinus communis. A total of 58, 55, 57, and 57 MADS-box genes were identified, respectively, and systematically characterized through phylogenetic, structural, and evolutionary analyses. Comparative results revealed that MIKCc-type genes are highly conserved and primarily expanded via segmental duplication under strong purifying selection. Co-expression network analysis identified MADS-box genes as high-connectivity hub candidates that are strongly associated with genes involved in tissue specification, hormone signaling, and secondary cell wall biosynthesis. Promoters analysis indicated that these genes contain diverse cis-regulatory elements; however, these results are based on sequence prediction and do not demonstrate functional regulatory interactions. Across species, MADS-box genes exhibited analogous temporal expression dynamics during lignified endocarp and seed coat development, consistent with a potentially conserved transcriptional framework. Collectively, this study provides new insights into the evolutionary diversification and putative functions of MADS-box genes, and proposes a putative hierarchical regulatory framework for lignified endocarp and seed coat development. These findings supply valuable candidate target genes for future molecular breeding aimed at improving shell thickness, hardness, and related agronomic traits in woody nut and oilseed species. Full article