Search Results (392)

Plant viral diseases cause significant agricultural losses worldwide and are shaped by complex virus-host and virus-virus interactions. Unlike fungal or bacterial pathogens, viruses cannot be directly controlled with chemicals, and their management relies on insect vector control and the development of virus-resistant plant varieties. Plants deploy endogenous epigenetic (DNA/chromatin-based) and epitranscriptomic (RNA-based) mechanisms to limit viral infections. RNA silencing pathways, particularly post-transcriptional gene silencing (PTGS) mediated by small RNAs, restrict viral replication and shape viral populations. Additional layers, including RNA-directed DNA methylation (RdDM), N6-methyladenosine (m⁶A) RNA modifications, histone modifications and chromatin remodeling, further modulate host–virus interactions. DNA methylation can be inherited and may confer resistance to future generations, although its stability is partial and context-dependent. Virus-derived 24-nt small interfering RNAs (siRNAs) act as mobile signals, inducing systemic gene silencing and potentially influencing viral population dynamics. Understanding these epigenetic and epitranscriptomic mechanisms can improve virus diagnosis, pathogenesis studies and disease management, while also providing insights into viral diversity and co-infection dynamics. This review synthesizes current knowledge of these mechanisms and discusses their implications for developing sustainable antiviral strategies. Full article

Modern olive breeding points to a plant model characterized by low vigour, high productivity, and resistance to biotic and abiotic stresses, all traits required by the intensive and superhigh-density (SHD) systems of olive tree growing. The Italian Don Carlo and FS-17 Favolosa stand out among the new cultivars that are being tested. They were obtained not by breeding but by mass selection from two seedling populations of the Frantoio cultivar (maternal parent). Here, a multidisciplinary approach was used to determine the paternal parent of Don Carlo and FS-17, and then to investigate the inheritance of interesting traits such as fruit cell dimensions and oil content in these cultivars. Microsatellites were applied in phylogeny and kinship analyses, along with two functional markers previously developed on OeACP1 and OeACP2 genes. Ascolana Tenera cultivar was identified as the paternal parent of both new cultivars. This result was also supported by the analysis of the self-incompatibility group of the new cultivars and their most likely paternal parents. Light and electron microscopy [Cryo Scanning Electronic Microscopy (CRYO-SEM), Electronic Scanning Microscopy (E-SEM), and Transmission Electron Microscope (TEM)] techniques were used to analyze the fruit development concerning oil accumulation. Significant differences in cuticle thickness, size and shape of mesocarp and exocarp cells, and oil content were detected among cultivars. Our results suggested that the rearrangement of the traits studied led to an improved progeny compared to the parents. FS-17 exhibited an oil storage efficiency higher than Frantoio. Don Carlo showed fruit traits and oil content almost intermediate between the parents, making it a dual-purpose cultivar. Full article

Throughout evolution, living beings have had to face and resist adverse conditions that tested their adaptive capacity. As a result, they have developed processes such as hormesis to ensure their survival and their ability to thrive in challenging environments. Currently, this process is recognized as a key mechanism that complements Darwin and Wallace’s theory of evolution, making it necessary to explore its relationship with other processes linked to natural selection such as adaptation, adaptability, plasticity, variation, and variability, among the main ones. Subsequent research within the framework of Neo-Darwinism and Modern Synthesis better explains hormesis and the understanding of the complexity of biological responses. In this framework, there is a great need to put hormesis in context based on the laws of variation and inheritance and establish a consistent, updated, and expanded definition that allows the integration of hormesis with evolutionary processes. In addition, the biological mechanisms through which hormesis may be related to the evolutionary process are discussed. Full article

Cold resistance is an important characteristic of sustainable development in the grape industry. The intraspecific recurrent selection in the Vitis vinifera (V. vinifera) method uses high-quality varieties as breeding materials and the substitution and accumulation of minor resistance genes, breeding high-quality grapes with cold resistance. This study was conducted to identify and genetically analyse the cold resistance of a V. vinifera hybrid population (Ecolly × Dunkelfelder), screen for highly resistant and sensitive plant samples, and use high-throughput sequencing to perform transcriptome sequencing and related differential gene expression analysis on each sample. The results revealed that the cold resistance of the hybrid offspring population was characterised by continuous quantitative trait inheritance, with 38 differentially expressed genes (7 upregulated genes and 31 downregulated genes) between the high resistance and high-sensitivity types. Analysis of genes related to various pathways, related to cold resistance, revealed that CYP76F10, Dxs, GERD, NMT, GDE1, glgC, and DHQ-SDH, as well as transcription factor MYB, HB, and MADS family genes, are key candidate genes for V. vinifera cold resistance research. Real-time fluorescence quantitative polymerase chain reaction (RT-qPCR) was used to investigate the expression characteristics of the six genes that were differentially expressed genes, the results of which were essentially consistent with the results of RNA-seq. Specifically, NMT may enhance cold resistance by enhancing membrane lipid stability. The synergistic expression pattern of CYP76F14 and Dxs suggests its key role in terpene synthesis. By exploring potential genes related to micro effects, a theoretical foundation for further exploration of new high-quality cold-resistant grape varieties has been provided. Full article

In vitro-cultured plant calli are colonized by diverse endophytes. As these endophytes are inherited from the maternal plant and appear to be highly dependent on the eco-niche of the host cells, they have been termed host-dependent endophytes (HDEs). HDEs occupy the most intimate microbial environment of plant cells. Nevertheless, our understanding of HDEs and their microenvironmental effects on host plants remains limited due to their cultivation-recalcitrant nature. In this study, grapevine (Vitis vinifera L. × V. labrusca L.) callus was subjected to long-term cultivation in media containing different antibiotics (Q: penicillin; L: streptomycin; Z: nystatin) with the intention of creating grapevine calli with different HDEs. The treated calli were then transferred to an antibiotic-free medium for continuous cultivation. After three cycles of subculture over a total period of 45 days, the endophytic microbiota of the grapevine calli were profiled and their physiological parameters were analyzed. Our results revealed that antibiotic treatments can effectively shape HDEs and create distinct bacterial and fungal HDE microbiota in grapevine calli. Compared to treatment without antibiotics (CK), the Q-treated callus contained more Gram-positive bacterial HDEs but fewer Gram-negative and stress-resistant bacterial HDEs, whereas the Z-treated callus had fewer Gram-positive bacterial HDEs and more Gram-negative, stress-resistant and potentially pathogenic bacterial HDEs. More importantly, grapevine calli with different HDE communities showed varying physiological traits such as respiratory rate, peroxidase activity and total sugar content. Correlative analyses further revealed the functional associations between HDE taxa and callus traits. This work provides an example for studying and utilizing plant HDEs. Full article

Fruit rots, both pre- and postharvest, represent a major problem in apple production, leading to significant yield losses each year. In this study, the inheritance of calyx abscission, a trait that could potentially reduce susceptibility to various fruit rots, was investigated in an F₁ population. Calyx persistence rates were phenotyped in the field in 2023 and 2025 on 122 offspring derived from a cross between ‘Idared’ and Malus baccata ‘Jackii’, the latter exhibiting complete calyx abscission. QTL analyses were conducted using genotypic data and a genetic linkage map generated in a previous study. Results show, for the first time in apple, that calyx abscission is a heritable trait influenced by multiple loci, with the strongest effects detected on linkage groups 5 and 13. Whether calyx abscission is linked to reduced susceptibility to fruit rots, and for which pathogens this applies, remains to be investigated in future studies. Full article

This paper interrogates two important but obscured admission policy developments at leading American universities in the post-World War II era. First, we critically examine the University of California’s “special admissions,” later formalized as the “Admission by Exception” policy adopted at two flagship campuses (Berkeley and UCLA) to open opportunities for veterans returning from the War under the GI Bill. The scale of this Admission by Exception policy was orders of magnitude larger than any comparable admissions policy in recent decades, including both the eras with and without legally permissible affirmative action. Second, we excavate archival evidence from the immediate aftermath of the 1954 Brown v. Board of Education decision, where leaders at the flagship University of Texas at Austin campus hastily adopted a new standardized exam requirement because their enrollment modeling indicated this was the most efficient way to not face further losses in federal court while excluding the largest number of African Americans (and thereby resisting Brown) and maintaining the same overall size of the freshmen class. These two post-war admission policy changes, one arising in de facto segregated California and the other in de jure segregated Texas, operated as racialized institutional mechanisms analogous to “redlining” racially restrictive housing policies that are a more familiar feature of the post-War era. We draw on historical data about earnings and wealth accumulation of the overwhelmingly white graduates of UC and UT in the 1950s–70s and connect these findings to the theoretical frameworks of Cheryl Harris’s “whiteness as property” and George Lipsitz’s racialized state investment. We show how these admission policies contributed to the intergenerational transfer of advantage. We then turn to the contemporary admissions landscape at highly selective American universities after the Supreme Court’s SFFA v. Harvard ruling. We link current trends at some elite institutions toward a return to standardized testing requirements, maintaining considerations of athletic ability mostly in “country club” sports as manifestations of bias in university admissions, which tend to favor white applicants. The paper connects historical racialization of admissions to ongoing inequities in access and outcomes, showing how both historical and contemporary admissions policies reward inherited forms of cultural capital aligned with whiteness. Full article

The drainage network of the Upper Araguari River, Brazil, developed within an intraplate setting characterized by the Brasiliano structural inheritance, Mesozoic magmatism, and marked lithological contrasts. Although these factors strongly influence fluvial organization, gaps remain in how litho-structural controls modulate fluvial transience and divide stability in intraplate regions. We hypothesize that drainage systems constrained by structural controls and resistant lithologies exhibit higher k_sn values, larger χ offsets, greater knickpoint frequency, and less stable divides than systems developed on friable substrates. To test this hypothesis, we applied integrated morphometric metrics (χ parameter, normalized channel steepness index—k_sn, knickpoints, roughness concentration index—Rci, stream frequency—Sf, drainage density—Dd, and lineaments) across 23 sub-basins to assess how the litho-structural conditions influence the drainage patterns, the fluvial gradients, the equilibrium states, and the divide stability. We identified 57 knickpoints and high k_sn values concentrated in quartzitic and basaltic terrains and along fault zones. χ-plot offsets near quartzite–phyllite/schist contacts indicate transient fronts slowed by differential erodibility, whereas catchments developed on friable substrates respond more rapidly to perturbations. Trellis, rectangular, parallel, and radial drainage patterns exhibit greater instability, underscoring the integrated role of lithological contrasts and tectonic reactivations in modulating intraplate fluvial transience. Full article

Soil salinization and autotoxicity are major abiotic stresses constraining melon production. The ACE gene family (also known as HOTHEAD, HTH) encodes flavin-containing oxidoreductases involved in stress responses and RNA cache-mediated non-Mendelian inheritance. This study presents a comprehensive genome-wide analysis of the ACE/HTH gene family in melon through integrated bioinformatic and experimental approaches. We identified 14 CmACE genes encoding proteins of 457–595 amino acids. This gene family underwent significant expansion through tandem duplication events, particularly on chromosome 5. Phylogenetic analysis grouped these genes into three distinct clades with conserved gene structures and motif compositions. Promoter analysis identified abundant stress- and hormone-responsive cis-elements, with ABRE elements being predominant. Expression analyses revealed that multiple CmACE genes, including CmACE3, CmACE5, CmACE6 and CmACE14, were significantly upregulated under salt-alkali and autotoxicity stresses, showing distinct tissue-specific and time-dependent expression patterns. Notably, CmACE3 and CmACE6 were strongly induced under both stresses, while the tandemly duplicated pair CmACE6 and CmACE7 exhibited divergent expression patterns, suggesting functional specialization. Our findings provide the first comprehensive characterization of the CmACE gene family in melon, revealing its evolutionary history and stress-responsive regulation. These results not only offer valuable genetic resources for breeding stress-resistant melons but also lay a foundation for future research into the potential role of this conserved gene family in integrating stress adaptation with epigenetic regulatory pathways in crops. Full article

We evaluated four candidate SNPs (GC-NPFFR2 rs137147462, GC-NPFFR2 rs109452259, BRCA1 rs134817801, and DGAT1 p.K232A) previously reported in relation to mastitis or milk production traits, using 10,729 test-day phenotypic records collected over 10 years from 269 Japanese Holstein cows (Bos taurus) enrolled in the national Dairy Herd Improvement (DHI) program. Linear mixed models were used to estimate genotypic effects on somatic cell score (SCS) and to test multiple inheritance models. To assess clinical relevance, mastitis severity was further analyzed using categories defined by somatic cell counts (SCC). Among the SNPs tested, GC-NPFFR2 rs137147462 showed the clearest and most consistent association with SCS under a recessive model, with GG cows exhibiting higher SCS throughout lactation. Ordinal logistic regression confirmed a higher probability of progression to severe mastitis in GG cows. DGAT1 p.K232A showed additive effects, with the A allele increasing milk yield while lowering fat and protein percentages. AA cows also showed higher SCS under a modest recessive effect. BRCA1 rs134817801 and GC-NPFFR2 rs109452259 had minimal effects. These findings support GC-NPFFR2 rs137147462 as a promising marker for mastitis resistance and indicate the importance of considering not only additive but also recessive genetic models in genomic selection strategies. Full article

Background: Pyridoxine-dependent epilepsy (PDE) is a rare disorder characterized by seizures resistant to conventional treatments but responsive to pyridoxine therapy. Typically caused by biallelic variants in ALDH7A1, PNPO, or PLPBP, a few patients present a similar clinical phenotype but without confirmed molecular diagnoses. We report a child with a 13-year PDE diagnosis and normal intellectual development, whose seizures recurred after pyridoxine withdrawal but resolved with reintroduction, despite unremarkable whole-exome sequencing results. Methods: Following negative results from WES, optical genome mapping (OGM) and whole-genome sequencing (WGS) were performed to highlight any potential structural variants involving known PDE-associated genes. Results: OGM and WGS revealed a recurrent 16p11.2 BP4-5 duplication, inherited from his healthy father, along with a de novo chromothripsis-type unbalanced t(1;18)(p22.3;q12.3), affecting several genes not currently associated with epilepsy (RIT2, PIK3C3, COL24A1, LRRC8D, DIPK1A, and DPYD), with RIT2 being a plausible candidate for the neurological phenotype due to its neuron-specific expression along with a likely reshuffling of topologically associating domains (TADs) involving SYT4, an epilepsy-candidate gene. Discussion: While the molecular data do not pinpoint a single gene or locus as the cause of seizures in this case, a key aspect of our patient’s phenotype is true pyridoxine dependence, rather than just pyridoxine responsiveness. We propose that the genomic complexity associated with the chromothriptic t(1;18) and the 16p11.2 BP4-5 duplication may create a unique metabolic environment in which pyridoxine-dependent pathways are disrupted through unconventional mechanisms. The preservation of cognitive function in our case has been observed in small groups of PDE patients, especially those diagnosed and treated early. This may indicate a distinct phenotypic subgroup that warrants further genetic investigation. Full article

Northern corn leaf blight is a major fungal disease hindering maize production worldwide. Among the various strategies of disease management, the deployment of host plant resistance is the most economic means to mitigate the yield losses, as it is cost-effective and durable. In this study, we performed the genome-wide association study (GWAS) analysis in a set of 336 maize inbred lines. The experimental material was evaluated for northern corn leaf blight disease response across two seasons during the rainy seasons of 2023 and 2024. The ANOVA results and estimates of genetic variability parameters indicated the existence of a substantial amount of genetic variability. High heritability and high genetic advance as percent mean suggested the presence of additive genetic effects in controlling the disease response. GWAS analysis was performed employing GLM, MLM, CMLM, MLMM, FarmCPU and BLINK. The results from GWAS identified 74 marker associations from GLM and FarmCPU models. The QTN S1_7356398, located on chromosome 1, identified from the GLM model, explained 12.12 percent of phenotypic variation. Another QTN S2_51098833 located on chromosome 2, identified from the FarmCPU model, explained 6.14 percent variation. Remaining associations explained lesser PVE, suggesting the quantitative inheritance of NCLB resistance. Candidate gene identification was performed by keeping B73 as a reference genome. The identified QTNs from the current study were found to be located in annotated genes with functional domains implicated in defence mechanisms in maize and other crops. Many candidate genes, including chitinase, putative serine/threonine protein kinase, and aldehyde oxygenase, were identified and found to play a crucial role in plant defence mechanisms against several biotic and abiotic stresses. Full article

The JAK2 46/1 (“GGCC”) haplotype is an inherited genetic variation within the Jak2 gene locus that has become a focal point in research related to oncogenesis, particularly in myeloproliferative neoplasms (MPNs). We conducted a narrative review of landmark discoveries in hematological malignancies and Jak2, focusing on its role in oncogenesis, risk stratification, and drug resistance in MPNs. This haplotype spans several polymorphisms within the Jak2 gene. It has been found to increase susceptibility to a variety of hematologic cancers, especially when linked with the somatic JAK2 V617F mutation, which results in the alteration of the JAK/STAT pathway, which is particularly essential for hematopoiesis. The “GGCC” part is characterized by four SNPs, with the G allele of the rs10974944 SNP in this haplotype correlated with MPNs progressing to myelofibrosis. Moreover, the G allele seems to be crucial for the predisposition to onco-drug resistance onset. To conclude, identifying the 46/1 haplotype in patients may not only enhance risk stratification for JAK2-driven cancers but also guide more effective, personalized therapeutic strategies to overcome resistance. Thus, this review aims to describe current knowledge about the JAK2 46/1 haplotype as a marker for diagnosis and the prediction of disease outcome. Full article

The tomato leaf miner, Tuta absoluta, is a major pest affecting economically important crops like tomatoes, causing significant global economic losses and exhibiting increasing resistance to pesticides. The sterile insect technique (SIT) is an environmentally friendly control method that is sustainable for both ecosystems and human health. This study used age-stage, two-sex life tables, transcriptomics, and bioinformatics to analyze how irradiation affects the reproductive capacity of male T. absoluta. Compared to the control group, the irradiated offspring showed reduced total lifespan, pre-adult survival rate, net reproductive rate, and intrinsic growth rate. Transcriptomic analysis identified 232 differentially expressed genes (DEGs). GO and KEGG enrichment analyses revealed that irradiation impacted biological processes in male adults related to key biomolecules, hormone metabolism and synthesis, and immune responses. Of the 14 selected genes validated through RT-qPCR, 13 were identified as potential regulators of male reproductive capacity, offering possible targets for controlling T. absoluta using inherited sterility-based SIT strategies. Overall, this study provides a theoretical basis for applying SIT in field control and identifies potential genetic targets for managing T. absoluta populations through a genetic sterile insect technique. Full article

Gene editing technologies, particularly CRISPR/Cas9, have revolutionized livestock genetics. They enable precise, efficient, and inheritable genome modifications. This review summarizes recent advances in the application of gene editing in livestock. We focus on six key areas: enhancement of disease resistance, improvement of growth performance and meat production traits, modification of milk composition, regulation of reproductive traits, adaptation to environmental stress, and promotion of animal welfare. For example, they have played an important role in improving mastitis resistance in cows, enhancing meat production performance in pigs, increasing milk yield in goats, and producing polled cows. Despite rapid progress, practical implementation in animal breeding still faces challenges. These include off-target effects, low embryo editing efficiency, delivery limitations, and ethical as well as regulatory constraints. Future directions emphasize the development of advanced editing tools, multiplex trait integration, and harmonized public policy. With continued innovation and responsible oversight, gene editing holds great promise for sustainable animal agriculture and global food security. Full article