Search Results (7,273)

Seed germination is a key determinant of wheat seed quality, strongly affected by genetic potential, weather conditions during production, and storage duration. Although numerous studies have investigated seed viability, little is known about how the interaction between annual climatic variability and storage length affects long-term germination performance of winter wheat. The objective of this study was therefore to assess the influence of weather conditions and storage period on germination energy and germination of 50 Croatian winter wheat (Triticum aestivum L.) cultivars released between 1947 and 2010. The experiment was conducted over five consecutive production years (2013/2014–2017/2018). Seeds of each cultivar were reproduced under standardized field conditions, harvested annually, and stored under identical controlled conditions (5 °C, 30–35% RH). Germination energy (first count, day 4) and total germination (final count, day 8) were evaluated according to ISTA protocols. The results revealed significant effects of both production year and cultivar on germination performance. Seeds produced in 2016/2017 exhibited the highest germination (96.21%), which was ~15% higher than the lowest rate observed in 2013/2014 (80.48%). Germination energy of 2013/2014 seeds was 23% lower compared to 2015/2016 and 2016/2017. Unexpectedly, seeds stored for only one year (2017/2018 production) showed lower germination (90.92%) than those stored for two (96.21%) or three years (95.01%), likely due to excessive rainfall (>100% above average) during seed maturation in 2018 that impaired seed quality. Several cultivars, including Una, Tonka, Žitarka, and Kuna, consistently maintained high germination rates (>94%) even after five years of storage, demonstrating strong physiological stability and long-term viability. These findings underline the combined importance of weather conditions during seed production and storage duration for seed longevity. In practical terms, cultivars with proven stability may be recommended for long-term storage and reliable field performance. Future research should extend germination assessment to additional vigor indices (e.g., germination synchrony, vigor index, abnormal seedlings) and explore genetic mechanisms underlying superior seed longevity in modern wheat breeding. Full article

The genus Paphiopedilum (Orchidaceae) has high ornamental value due to its long flowering period, brilliant flower color, and peculiar floral morphology. Guangxi is the center of ecological diversity of Paphiopedilum, and therefore it is urgent to conduct rescue studies on the genetic resources and genetic structure of this genus in Guangxi. In this study, the genetic diversity of 39 populations from eight Paphiopedilum species in Guangxi was analyzed using ten selected EST-SSR primer pairs and fluorescent PCR amplification. The results show that genetic diversity varied among species, with large differences in expected heterozygosity (He). The highest genetic diversity was observed in P. barbigerum (I = 0.923; He = 0.480), while P. dianthum (I = 0.179; He = 0.098) showed the lowest diversity. From the genus perspective, molecular variance analysis (AMOVA) revealed that 57% of the genetic variation occurred among populations and 43% within populations, with inter-population variation being the main source of genetic variation. From a species perspective, genetic differentiation varied, with inter-individual differentiation ranging from 79% to 95%. The percentage of molecular variance indicated that genetic variation mainly occurred among individuals, which was the main source of total variation. According to the principle of maximum likelihood, the optimal K value was determined to be 6, and 760 Paphiopedilum samples were divided into six subgroups. The results of this study not only identify priority populations for conservation and establish a germplasm repository to preserve existing resources, but also provide references for research on asexual reproduction, seed propagation, and hybrid breeding of Paphiopedilum, thereby promoting the conservation and sustainable utilization of Paphiopedilum germplasm resources. Full article

Sugar beet (Beta vulgaris L.), a biennial sugar crop, provides about 16% of the world’s sucrose production. PEG and Agrobacterium tumefaciens-mediated transformation have been established for sugar beet. However, the traditional transformation of sugar beet is time-consuming, low efficiency, and dependent on tissue regeneration. Recently, the use of Agrobacterium rhizogenes for genetic transformation without tissue culture has become a new possibility. Here, we describe an optimized A. rhizogenes-mediated transformation for the generation of composite sugar beet without tissue culture. By dipping A. rhizogenes K599 colonies onto a wound of hypocotyl and petiole, about 81.7% and 51.1% of shoots and leaves could be induced to produce adventitious roots. Of these, more than 60% of the explants contained transformed adventitious roots. Specifically, we discovered that the transformation efficiency was significantly improved when the MAS promoter was employed instead of the CaMV35S promoter. The transformation in adventitious roots was also validated by qRT-PCR and Western blot at the transcriptional and translational levels. The transformed adventitious roots have great potential for the study of taproot development, sugar accumulation, and resistance to root diseases, which is closely related to sugar beet yield and quality. Full article

This paper examines various aspects of maize plant height. Firstly, it emphasizes that maize is a significant food and forage crop with considerable research significance, and that its plant height is influenced by multiple factors, including biotic elements such as genes and plant hormones, as well as abiotic factors such as soil, water, and climate. Secondly, the paper explores the complex relationship between maize plant height and yield, noting that moderate plant height can improve photosynthetic efficiency, reduce lodging risk, and enhance yield, although it may also affect kernel quality. Additionally, the paper reviews the application of modern biotechnological methods in maize plant height research, such as genome-wide linkage analysis, gene editing, transgenic technology, and epigenetic studies, which aid in elucidating the genetic mechanisms underlying plant height. Finally, it outlines future research directions for improving maize plant height and yield, highlighting key challenges that require urgent attention, such as the advancement of gene editing techniques, the integration of multiple biotechnologies, and strategies to address climate change, with the ultimate goal of achieving precision breeding for high-yielding, stress-resistant, and broadly adaptable maize varieties. Full article

Sex determination is a fundamental biological process governing animal reproduction. Although substantial progress has been made in elucidating its genetic basis, the genetic architecture underlying complex sex determination systems remains poorly understood. In this study, we identify sex-associated insertion–deletion (indel) variants, screen candidate genes, and compare sex-associated variation across populations with different genetic backgrounds in the Fujian oyster (Magallana angulata). Based on whole-genome resequencing data of a culture strain (designated FL), a total of 299,774 high-quality indels were identified. By integrating genome-wide association analysis (GWAS), fixation index (F_ST) analysis, and sex-biased genotype frequency comparisons, 77 overlapping sex-associated indels were identified, predominantly clustered within a 1.8 Mb (8.3–10.1 Mb) region on chromosome 9. Principal component analysis (PCA) based on the sex-associated markers and their subsets consistently separated male and female individuals in the FL strain. For two representative sex-associated indels, PCR-based genotyping methods were developed and validated. Functional annotation identified putative candidate genes for sex determination, including PKD1L1, 5-HTRL, SCP, and CCKRa. Comparative analysis of variants within PKD1L1 across wild, farmed, and selectively bred populations revealed a progressive enrichment of male-linked alleles in domesticated and selectively bred groups, particularly in male individuals. This study provides direct evidence that sex in the Fujian oyster is genetically determined and reveals that domestication and artificial selection may drive the emergence of major sex-determining loci, offering important insights into the genetic basis of sex determination in the Fujian oyster, and establishing a theoretical and practical foundation for molecular marker-assisted breeding of monosex lines for this species. Full article

Sugarcane (Saccharum spp.), a vital economic crop, suffers significant yield losses from drought. This study elucidates the genetic regulation of lignin biosynthesis—a key drought-resistance mechanism—by analyzing three contrasting accessions: drought-sensitive Saccharum officinarum (Badila), drought-resistant hybrid (XTT22), and drought-tolerant wild Saccharum spontaneum (SES-208) under progressive drought (7–21 days). Physiological analyses revealed pronounced lignin accumulation in XTT22 roots/leaves, driven by elevated coniferyl/sinapyl alcohol substrates, while Badila showed minimal deposition. Genomic characterization of cinnamyl/sinapyl alcohol dehydrogenase (CAD/SAD) families across six sugarcane genomes identified 322 genes phylogenetically clustered into three clades. Class I members (CAD1, CAD5, etc.) were critical for lignin biosynthesis, with tandem/segmental duplications driving family expansion and promoters enriched in stress-responsive cis-elements (ABA, MeJA, light). Transcriptomics and qRT-PCR confirmed strong correlations between Class I CAD expression, lignin content, and drought tolerance. These findings establish CAD Class I genes as novel molecular targets for enhancing drought resilience in sugarcane breeding programs. Full article

Sugarcane smut, caused by Sporisorium scitamineum, is a globally prevalent disease that severely impacts sugarcane yield and quality. The most cost-effective and sustainable approach to disease control is breeding for smut-resistant varieties. In this study, we conducted a genome-wide association study (GWAS) using a panel of core sugarcane parents and their derived lines to elucidate the genetic basis of smut resistance across seven different environments. We identified 68 new loci significantly associated with smut resistance across all the chromosomes. Based on functional annotations and genomic positions, 164 candidate genes were identified, many of which are related to enzymatic systems, resistance genes, transcription factors, and other pathways implicated in smut defense. Using resistance ratings and associated SNPs, we further selected ten elite parents and derivatives as potential donors for marker-assisted selection (MAS). This study provides a valuable reservoir of genetic resources for improving smut resistance in sugarcane. Full article

Peruvian Creole goats (PCGs) represent a unique genetic resource shaped by adaptation to diverse environments and traditional breeding practices. In this study, we performed a genomic analysis of six regional populations (Ancash, Ica, Lambayeque, Lima, Piura, and Tumbes) using high-density SNP genotype data. Principal component analysis revealed a moderate genetic structure, with the Ica population showing clear separation and northern populations exhibiting overlap. Runs of homozygosity were predominantly short, and specific regions on chromosome 6 were shared across populations. Inbreeding coefficients were generally low, with Ancash showing the highest values. Linkage disequilibrium decayed rapidly over genetic distance, especially in Piura, indicating higher genetic diversity. Estimates of effective population size revealed decreasing trends across populations, with Piura maintaining the largest recent population size. These findings offer valuable insights into the population structure of Peruvian Creole goats, providing guidance for conservation and sustainable breeding efforts. Full article

This study investigated the effects of dietary Rhodotorula mucilaginosa supplementation with different concentrations (0.0 g/kg, 0.1 g/kg, 1.0 g/kg, 10.0 g/kg) on red claw crayfish (Cherax quadricarinatus). Four groups were established: control group (CK, 0.0 g/kg), low-dose group (HL, 0.1 g/kg), medium-dose group (HM, 1.0 g/kg), and high-dose group (HH, 10.0 g/kg). The feeding trial lasted for 56 days. The results showed that, compared with the control group, all supplementation groups exhibited significantly reduced feed conversion ratios (p < 0.05). The HM and HH groups demonstrated significant increases in body length growth rate, specific growth rate, weight gain rate, hepatosomatic index, and survival rate (p < 0.05). All supplemented groups showed significantly enhanced trypsin and lipase activities in intestines and trypsin activity in the hepatopancreas (p < 0.05). The HM and HH groups exhibited elevated α-amylase activity in the hepatopancreas (p < 0.05). Compared with the control group, marine red yeast supplementation reduced colonization of potential pathogens while increasing probiotic abundance, effectively improving intestinal microbiota structure. The HM group significantly improved intestinal villus length, width, and muscular thickness (p < 0.05). All supplemented groups showed considerable upregulation of hepatopancreatic genes related to immunity (heat shock protein 70, down syndrome cell adhesion molecule, crustacean antibacterial peptide, serine proteinase inhibitors, crustacean hyperglycemic hormone, anti-lipopolysaccharide factor, lysozyme, and alkaline phosphatase) and antioxidant defense (superoxide dismutase, glutathione peroxidase, glutathione, and catalase) (p < 0.05). These findings indicate that R. mucilaginosa can significantly enhance digestive enzyme activity, maintain intestinal health, improve antioxidant and immune-related gene expression, and promote growth performance in red claw crayfish, with the HM group (1.0 g/kg R. mucilaginosa) showing optimal promotion effects. Full article

Agronomic advancements have led to significant increases in maize yield per hectare in Northeast China, primarily through improved density tolerance. However, the genetic mechanism underlying grain yield responses to density stress remains poorly understood. Here, a population of 193 recombinant inbred lines (RILs) derived from the cross between ZM058 and PH1219 was employed to identify quantitative trait loci (QTLs) under two planting densities across three locations over two years. Six yield-related traits were investigated: ear tip-barrenness length (BEL), cob diameter (CD), ear diameter (ED), ear length (EL), kernel number per row (KNR), and kernel row number (KRN). These traits exhibited distinct and divergent responses to density stress, with the values of CD, ED, EL, KNR and KRN decreasing as planting density increased, except for BEL. A total of 81 QTLs were identified for these traits: 39 were unique to low planting density, 22 to high planting density, and 20 were shared across both conditions. Additionally, nine QTL clusters implicated in the development of multiple traits were detected. The results indicate that planting density significantly affects yield traits, primarily through the interaction of numerous minor QTLs with multiple effects. This insight enhances our understanding of the genetic basis of yield-related traits and provides valuable guidance for breeding high-density-tolerant varieties. Full article

Feed efficiency is a key economic trait that affects the cost of production in broiler farming. Reducing broiler feed costs contributes to reducing excessive feed consumption and increasing the productivity of broiler breeding. Therefore, identifying genetic regions associated with feed efficiency is crucial for broiler breeding. In this study, we performed genome-wide association (GWAS) analyses of feed conversion ratio (FCR) and residual feed intake (RFI) traits for four growth cycles (72–81, 81–89, 89–113, and 113–120 days of age) using 55K single-nucleotide microarray genotypic data of 4493 Wenchang chickens from two generations. In the single-trait GWAS, a total of 59 SNPs were identified, and 36 genes were annotated within the ±50 kb regions surrounding candidate loci (including ABCC6, CLDN10, DGKB, EXT2, FOXO1, IFT140, JAG2, among others. These candidate loci explained 1.4–7.0% of the phenotypic variance explained, and applying a filtering criterion that required a deleteriousness score greater than 8, one locus-Gallus gallus chromosome (GGA) 5:3550350 (chCADD score = 12.51524) was located within intron 3 of ANOX3. In the FCR and RFI traits in the longitudinal GWAS (LONG-GWAS) model, 80 SNPs and 191 SNPs were identified, respectively, and a total of 43 genes and 121 genes were annotated. A total of 33 candidate loci were screened by combining the locus deleteriousness scores, and 25 candidate genes were annotated within the upper and lower 50 kb ranges. Through KEGG signaling pathway analysis, it was found that the candidate genes were highly enriched mainly in autophagy, mitochondrial phagocytosis, and other pathways. In conclusion, the SNPs and potential genes identified in this study will be helpful for chicken breeding and provide fundamental data for the genetic basis of chicken feed efficiency-related traits. Full article

The convergence of genomic selection and artificial intelligence (AI) is redefining precision breeding in dairy cattle, enabling earlier, more accurate, and multi-trait selection for health, fertility, climate resilience, and economic efficiency. This review critically examines how advanced genomic tools—such as genome-wide association studies (GWAS), genomic breeding values (GEBVs), machine learning (ML), and deep learning (DL) models to accelerate genetic gain for complex, low heritability traits. Key applications include improved resistance to mastitis and metabolic diseases, enhanced thermotolerance, reduced enteric methane emissions, and increased milk yield. We discuss emerging computational frameworks that combine sensor-derived phenotypes, omics datasets, and environmental data to support data-driven selection decisions. Furthermore, we address implementation challenges related to data integration, model interpretability, ethical considerations, and access in low-resource settings. By synthesizing interdisciplinary advances, this review provides a roadmap for developing AI-augmented genomic selection pipelines that support sustainable, climate-smart, and economically viable dairy systems. Full article

Pepper is a major horticultural crop cultivated extensively worldwide. Among its various agronomic characteristics, fruit length is a key trait influencing both yield and visual quality. Despite its importance, the genetic mechanisms regulating fruit length in Capsicum remain insufficiently characterized, hindering the development of high-yielding and aesthetically desirable cultivars. In this study, fruits at three developmental stages (0, 15, and 30 days after flowering) were sampled from the long-fruit mutant fe1 and its wild-type progenitor LY0. Phenotypic characterization and transcriptomic sequencing were conducted to identify candidate genes associated with fruit length regulation. Morphological analysis revealed that the most pronounced difference in fruit length occurred at 30 days after flowering. RNA-seq analysis identified 41,194 genes, including 13,512 differentially expressed genes (DEGs). Enrichment analysis highlighted key pathways, such as plant–pathogen interaction, plant hormone signal transduction, and the MAPK signaling pathway. DEG classification suggested that several downregulated genes related to early auxin responses may contribute to the regulation of fruit elongation. Notably, the gibberellin signaling gene SCL13 (Caz12g26660), transcription factors MYB48 (Caz11g07190) and ERF3-like (Caz10g00810), and the cell-wall-modifying gene XTH15-like (Caz07g19100) showed significantly elevated expression in 30-day-old fruits of fe1. Weighted gene co-expression network analysis (WGCNA) further revealed a strong positive correlation among these genes. Quantitative RT-PCR analysis of eight selected DEGs confirmed the RNA-seq results. This study provides a foundational framework for dissecting the molecular regulatory network of fruit length in Capsicum, offering valuable insights for breeding programs. Full article

The tung tree, a crucial woody oil plant, serves as a premium raw material for eco-friendly coating production, yet its short lifespan (typically under 20 years) and lack of asexual reproduction have led to resource losses. This study surveyed wild tung trees in the Hunan–Guizhou region, focusing on older and high-fruit-yielding specimens. After two years of investigation, selected individuals were conserved in the Wugang Tung Tree Germplasm Resource Bank to provide high-quality materials for breeding superior varieties. Comparative analysis of fruit yield and commercial traits from 60 wild trees identified 12 superior individuals for secondary selection, with notable trait variations observed. Using the entropy weight-TOPSIS method, superior individual FT01 exhibited the highest relative closeness (C = 0.6836), indicating optimal overall traits, while FT01, XY12, JX01, WG25, and WG31 (all with C > 0.50) demonstrated good overall performance. Genetic diversity analysis of these 12 individuals, employing 14 SSR primers, revealed 33 alleles (average 2.2142 per primer), Shannon’s information index values ranging from 0.1973 to 0.9723 (average 0.5325), and polymorphism information content between 0.1486 and 0.5833 (average 0.3981), indicating high genetic diversity. UPGMA clustering divided the superior trees into five groups, with FT01, WG25, JX01, and XY12 in separate groups, all exhibiting high yield and large fruit size, consistent with TOPSIS results. Consequently, FT01, XY12, JX01, WG25, and WG31, with the highest comprehensive evaluation scores and richest genetic diversity, are prioritized as candidate materials for new variety selection and breeding. Full article