Search Results (1,869)

Sitka spruce (Picea sitchensis (Bong.) Carr.) is among the most commercially important tree species in European and North American forestry, and genetic improvement programmes are therefore essential for promoting its productivity and sustainability. This research emphasises the significance of the breeding programmes. The primary objective of this study was to provide more reliable information on family selection for the improvement programme of Sitka spruce by accounting for competition and environmental heterogeneity effects. Analyses in the present study were carried out on historical inventory data of height (HT) and diameter at breast height (DBH) from a half-sib progeny trial of Sitka spruce in Ireland. Tree measurement data were collected at ages 6, 12, 15 and 20 years. A mixed linear model incorporating spatial and competition terms was applied to estimate genetic parameters of the Sitka spruce population. The direct genetic effects of each family on its own phenotypes and the competition effect on its neighbour’s phenotype were examined over time. The study demonstrated an analytical approach for assessing both genetic as well as environmental aspects of competition in a Sitka spruce progeny trial. The combined model integrating competition and spatial terms (model CS) improved model fit compared with the basic model, which only included the random effects of genetic and experimental design factors (model B), with an AIC difference of up to 3609 between them. Residual error obtained from model CS was usually smaller than from model B, with the greatest reduction of 85%. Furthermore, model CS generally improved the estimation of heritability for growth traits, by up to 241, when compared with model B. In addition, genetic differences in competitive ability among families were also observed. Families with favourable combinations of direct genetic and competitive breeding values were suggested for selection in subsequent cycles of the breeding programme, i.e., families with relatively high direct genetic breeding value but low and consistent competitive breeding value over time. This work develops a practical framework to inform future family selection for Sitka spruce improvement programmes. Full article

Fetal hypoxia and maternal stress during pregnancy are major risk factors for neurological disorders. The effects of maternal hypoxia may be transmitted to the next generation through persistent alterations in maternal endocrine and metabolic regulation. In this study, using immunohistochemistry, quantitative RT-PCR, and Western blotting, we assessed morphological features and HIF1-dependent processes in the fetal and adult brains of progeny of female rats exposed to maternal hypoxia (PMH). We identified a delay in progenitor cell differentiation into neurons at embryonic day 14, a decreased number of neurons in the hippocampus, an increased number of astrocytes in the prefrontal cortex, and a decreased number of astrocytes in the raphe nuclei of the PMH rats. However, no significant changes were observed in HIF1α protein levels or in the protein levels of HIF1-dependent gene products in the examined brain structures. Thus, the transgenerational effect of maternal hypoxia is manifested as structural disturbances of brain development but is not accompanied by changes in HIF1-dependent metabolism. Full article

The autophagy regulator ATG7 helps maintain cellular homeostasis and has been suggested to modulate aspects of antiviral immune responses. In Drosophila, ATG7-dependent autophagy contributes to host resistance to vesicular stomatitis virus (VSV), a negative-strand RNA virus of family Rhabdoviridae that is widely used for studying viral biology and developing vaccines and virotherapy. However, the role of ATG7 in mammalian cells, especially non-immune cell types, remains unclear. Herein, we systematically examined the impact of ATG7 on VSV infection using CRISPR-edited cell lines derived from murine embryonic fibroblast (MEF), HeLa, and Huh7.5 cells, in relation to its effect on the expression of antiviral interferon-stimulated genes (ISGs). We found that ATG7 deficiency blocked basal as well as VSV-induced LC3B lipidation, concomitant with moderate reductions in progeny virus yields, while the reconstitution of ATG7 reversed the phenotypes. Mechanistically, ATG7 did not affect viral entry but rather was associated with moderate upregulation of VSV RNA replication. Intriguingly, ATG7 inhibited baseline ISG expression, and this correlated with its pro-VSV effect in all three cell types, while its suppression of innate immune responses elicited post-VSV infection did not. Altogether, these data provide new insights into the role of ATG7 in regulating VSV replication and innate immunity and have implications for developing VSV-based prophylaxis/therapeutics. Full article

Hybridization effectively enhances breeding efficiency and significantly boosts sheep productivity. However, the epigenetic mechanisms underlying the superior production performance of crossbreds remain largely elusive. In this study, Hu sheep were crossbred with Suffolk rams used as the paternal line. We integrated RNA-seq, ATAC-seq, and CUT&Tag (H3K4me3, H3K4me1, H3K27ac, and H3K27me3) techniques to characterize epigenetic regulatory differences in the longissimus dorsi muscle between Hu sheep (HU) and crossbred progeny (SH). Phenotypic and transcriptomic analyses revealed that SH crossbred sheep exhibited superior growth performance (p < 0.05), and the upregulated genes in the Apelin signaling pathway were significantly correlated with eye muscle area (p < 0.05). Utilizing a Hidden Markov Model, we annotated 15 distinct chromatin states in both HU and SH sheep, systematically characterizing the dynamic epigenomic landscapes across the two breeds. In contrast to SH sheep, the genome of HU sheep exhibited enrichment of repressive chromatin modifications typified by H3K27me3. Strong active enhancers (EnhA) were significantly enriched within upregulated genes in SH. A total of 1862 SH-specific and 691 HU-specific EnhA elements were characterized in this study. Motif analysis revealed that SH-specific EnhA were enriched for myogenic MEF2 family motifs (p < 0.05), which promote muscle and vascular development. By integrating multi-omics data, we constructed a putative regulatory network potentially modulated by SH-specific enhancers, identifying CMKLR1, PPARGC1A, and TLE3 as the core hub genes. Collectively, this study provides a robust data resource, identifying candidate genes and regulatory elements associated with crossbreeding-related muscle phenotypes. Full article

Hepatitis C Virus (HCV) is a plus-strand RNA virus that replicates its genome via a minus-strand intermediate, which in turn is the template for the synthesis of progeny plus-strand genomes. In order to characterize sequence elements in the HCV 5′-untranslated region (5′UTR) that are possibly involved in the regulation of minus-strand RNA synthesis starting at the genome’s 3′end, we used a replicon system in which a possible function of these sequences is uncoupled from other functions like translation regulation. For the specific detection by RT-qPCR of minus strands newly synthesized in the cells from the transfected replicon RNAs, we carefully eliminated the contaminating DNA and transfected RNA and avoided self-priming caused by hairpin formation. We found that the absence of any HCV sequences at the 5′end does not allow genome replication. Stem-loop I-II sequences only allow extremely low-level replication, whereas the presence of stem-loops I-III or the complete 5′UTR allows efficient replication. The mutation of sequences required for the binding of translation initiation factor 3 (eIF3) and the ribosomal 40S subunit in the 5′UTR of the plus strand severely impairs minus-strand synthesis. This suggests that eIF3 and the 40S subunit are involved in plus-strand 5′-3′-end communication and the regulation of minus-strand synthesis. Full article

Intergeneric hybridization of Vanda and Papilionanthe holds promise for pyramiding superior ornamental and stress-tolerant traits, though systematic studies on their hybrids remain scarce. Using Vanda lamellata var. Boxallii (♀), Papilionanda ‘Hetty Henderson’ (♂), and 72 progenies, we investigated parent–progeny relationships via iPBS markers, spectral phenomics, and morphology, alongside floral water balance and thermotolerance. Six iPBS primers amplified 90 bands (92.98% polymorphism), confirming high genetic diversity. Spectral reflectance (400–1000 nm) revealed organ-specific genetic differentiation. Clustering analyses consistently indicated that progenies were genetically and phenotypically closer to the female parent, with spectral/morphological patterns matching genetic groupings. Resistance evaluations showed progenies had significantly stronger floral water storage capacity than both parents, while the female parent excelled in water transport traits. Progenies developed thicker petal/sepal cuticles, though the male parent exhibited superior thermotolerance indices. This study clarifies the genetic regulation of stress resistance in these hybrids, providing critical support for precise early screening in orchid breeding. Full article

In this study, 101 F₁ hybrid lines were constructed using Medicago sativa L. ‘Xinjiang Daye’ and Medicago falcata L. ‘Hulunbeier’ as parents, and their agronomic and quality traits were systematically evaluated over two consecutive years. The results showed that the hybrid progeny exhibited more pronounced phenotypic variation in the second year. Specifically, the X4H4 combination demonstrated superior biomass accumulation, while the H4X4 combination showed notable advantages in quality indices. In the second year, the correlations among agronomic traits were clearly strengthened, with morphological traits closely associated with biomass; coordinated variation was also observed among quality traits, as crude protein content was negatively correlated with fiber-related indices. Based on principal component and heterosis analysis, the hybrid lines were classified into distinct advantage groups: Group 1 exhibited clear agronomic heterosis, while Groups 2 and 3 displayed distinct advantages in quality traits. Finally, 12 elite individuals were selected based on integrated KASP molecular marker profiling and comprehensive phenotypic evaluation. This study establishes a strategy for marker-assisted phenotypic evaluation in alfalfa breeding, providing a theoretical basis and germplasm resources for the development of high-yield and high-quality cultivars. Full article

Understanding intra- and intergenerational adaptive strategies is essential for developing resilient crops. This study investigated these dynamics in Solanum lycopersicum L. cv. Micro-Tom by subjecting parental plants to ultrasound priming and drought stress, followed by drought treatment in the progeny. We introduced the Intergenerational Plasticity Ratio (IPR) as a framework to quantify how stress-response strategies shift across generations. Our results reveal a divergence in adaptation: while parental plants prioritize immediate survival through morphological reductions, the progeny exhibit refined phenological shifts as a cost-effective mechanism. The results suggest that ultrasound may serve as a priming stimulus, preparing internal signaling pathways for heightened stress readiness. These phenotypic shifts suggest that ultrasound-based priming could be explored as a potential non-chemical approach to influence crop resilience. This may allow plants to exhibit adaptive developmental timing in response to specific stressors; however, further research is needed to determine the scalability and stability of these effects across different environments. Full article

Soybean (Glycine max) is relatively recalcitrant to genetic manipulations; hence, it is often interrogated with transient means such as virus-induced gene silencing (VIGS). We earlier modified cowpea severe mosaic virus (CPSMV) to develop a soybean-friendly VIGS system referred to as QUIN-FZ. Here we report additional calibrations of this system. We enhanced the intra-bacterial stability of plasmid QUIN, which contained a CPSMV RNA1 cDNA embedded with four introns, by adding a fifth intron, resulting in PENTIN. We separately upgraded the plasmid FZ, which contained a modified CPSMV RNA2 cDNA with a cloning site in the middle of the viral polyprotein, by creating another cloning site within the 3′ untranslated region, leading to ZY. We next used the new PENTIN-ZY system to investigate a putative soybean protein kinase designated QL18. Virus-mediated overexpression of two allelic, 147-amino-acid (aa) protein fragments, derived from two different QL18 orthologs, elicited drastically different responses in soybeans. While the fragment derived from soybean accession OX20-8 prevented the cognate virus from infecting top young leaves in at least 50% of inoculated seedlings, its allelic counterpart derived from soybean accession PI427105B elicited apical necrosis in 100% of soybean seedlings. By examining progeny viruses as well as viruses encoding chimeras of the two fragments, we identified more than a dozen mutations that abrogated these unique phenotypes. Our findings establish the PENTIN-ZY system as a versatile tool for overexpressing small proteins and protein fragments, accelerating their functional characterization. Full article

The bollworm/corn earworm, Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae), is one of the most economically damaging crop pests in North America. Colonies of H. zea are notoriously difficult to maintain and frequently collapse in laboratory rearing. The persistent difficulty in maintaining healthy H. zea colonies has become a major obstacle to performing many research activities on the insect. To optimize colony maintenance, six populations were evaluated across three trials and six tests examining pupal maturity at diet removal, adult emergence synchrony, and cohort size at mating and reproduction. Females emerging from mature pupae produced more eggs than those from mid-aged (5–7 d) or young pupae (0–2 d). Synchronizing male and female emergence within one day yielded higher mating frequency, spermatophore transfer, and progeny, whereas a two-day difference reduced these metrics by 45–67%. Adult cohort size also influenced the outcomes, with ≥10 males and ≥10 females per cage enhancing reproductive success. Most matings occurred on nights 2–3, peaking within 2.5 h after lights off. Positive correlations were observed among mating frequency, spermatophore transfer, and progeny production. Overall, optimal performance was achieved by removing pupae only at maturity, synchronizing adult emergence within one day, and maintaining larger adult cohorts. These findings should establish key conditions to improve the mating success, reproduction, and laboratory rearing of H. zea. Full article

Growth traits in goats are impacted by both genetic and non-genetic variables; as such, it is critical to separate direct and maternal effects for reliable genetic assessment. This study determined the phenotypic and genetic characteristics for birth weight (BW), weaning weight (WW), and average daily gain (ADG) in Salem Black goats. The MTDFREML software was used to evaluate data from 930 kids, the progeny of 147 bucks and 804 does, gathered between 2004 and 2019. Three models were compared: Model 1 (direct genetic effects only), Model 2 (adding permanent environmental effects), and Model 3 (adding maternal genetic effects and direct–maternal covariance). The overall mean was 2.21 kg for BW, 9.23 kg for WW, and 78.27 g/day for ADG. The direct heritability estimates for BW, WW, and ADG were 0.06–0.22, 0.13–0.40, and 0.11–0.16 across models, respectively, whereas maternal heritability ranged from 0.01 to 0.13. The study revealed maternal genetic effects on birth weight but their total contribution to growth trait variation is modest, and model parsimony suggests that maternal effects on WW and ADG be excluded. Breeding programs should therefore prioritize direct selection for growth performance, whereas management strategies such as enhanced nutrition, targeted kidding, and support for first-parity do provide more rapid and effective avenues to improve pre-weaning developmental outcomes. Hence, a pragmatic approach that combines direct genetic selection and environmental optimization would result in greater genetic gain and support long-term meat production in Salem Black goats. Full article

Psocids are difficult to manage using insecticides, hence the need for alternatives including biological control. Evaluation of data from two separate studies was conducted. One study investigated the potential of Cheyletus eruditus (Shrank) (Trombidiformes: Cheyletidae) and Cheyletus malaccensis Oudemans to manage Liposcelis decolor (Pearman) (Psocodea: Liposcelididae), whereas the other investigated the potential of Xylocoris flavipes (Reuter) (Hemiptera: Anthocoridae) to do the same. Temperature and relative humidity conditions were similar in both studies. However, the five predator–prey (P-P) ratios for the mites (0:20, 1:20, 2:20, 4:20 and 10:20) were different from those of X. flavipes (0:240, 1:240, 2:240, 3:240 and 5:240). The three predators demonstrated significant prey suppression; however, the level of control by X. flavipes was higher compared to the mites. At optimal prey conditions of 32 °C and 75% RH, all predators maintained high suppression. Temperature significantly influenced progeny production, with high reproduction observed at 20 and 24 °C for the Cheyletus spp. and at 28 and 32 °C for X. flavipes. Relative humidity of 63% was detrimental to Cheyletus spp. progeny production. While the results from this evaluation for the purpose of comparison should be interpreted cautiously, the different performances of the predators provide valuable insights for biological control of stored-product psocids. Full article

Interferon-induced transmembrane proteins (IFITMs) are broad-spectrum antiviral factors that restrict the entry of many enveloped viruses, including HIV-1, by modifying host membrane properties and trapping fusion at the hemifusion stage. Beyond blocking entry in target cells, IFITMs also reduce the infectivity of virions produced from IFITM-expressing cells, a phenomenon termed “negative imprinting”. Conserved motifs, such as the amphipathic helix and oligomerization motifs, have been reported to be essential for IFITM-mediated protection of target cells from viral infection. Yet, the impact of IFITM incorporation on progeny virion infectivity remains poorly defined. Here, we show that IFITM3 mutants defective in target cell protection activity still markedly impair HIV-1 fusion/infection upon incorporating into virions, without affecting viral maturation or Env incorporation. Immunofluorescence studies suggest mislocalization of the IFITM3 mutants as the reason for the lack of antiviral activity in target cells. Testing the antiviral activity of chimeras between antiviral and non-antiviral IFITM orthologs failed to clearly identify a domain responsible for reduction of HIV-1 infectivity, suggesting that multiple domains may be required for negative imprinting. Interestingly, co-incorporation of non-antiviral dog IFITM1 with human IFITM3 did not interfere with IFITM3’s negative imprinting activity, despite forming mixed hetero-oligomers. This finding implies a dominant, oligomerization-independent antiviral phenotype of IFITM3 in virions. Our findings suggest that IFITMs may protect target cells and negatively imprint progeny virions through distinct mechanisms, underscoring the need to further characterize the molecular basis for the reduced fusion competence of IFITM-containing HIV-1 particles. Full article

Blackberry cultivars typically exhibit high fruit antioxidant levels but poor drought tolerance compared with their wild Rubus relatives. Few studies have employed wild Rubus species in hybridization programs aimed at improving drought tolerance and fruit quality in cultivated blackberries. In this study, we comprehensively assessed growth traits, fruit characteristics, and drought tolerance in 108 F₁ progenies derived from a cross between the cultivated blackberry ‘Prime-Ark^® Freedom’ and the wild species Rubus chingii. Correlation analysis of fruit morphological traits indicated significant positive associations among single fruit weight, fruit thickness, and fruit diameter, reflecting coordinated fruit development. Among the nutritional quality traits evaluated, both anthocyanin and total phenolic contents exhibited transgressive segregation. Specifically, 47.78% of the progeny demonstrated higher anthocyanin content, and 45.56% exhibited greater total phenolic content than the higher-performing parent. The corresponding genetic transmission ability (Ta) reached 139.23% and 101.24% for these traits, respectively, indicating pronounced additive genetic effects and high heritability. After a 7-day drought treatment, the hybrid progenies exhibited significant heterosis in catalase (CAT) activity, with 24.07% exceeding the higher-parent value. In contrast, proline content exhibited high broad-sense heritability (H² = 0.990) and considerable genetic variation. Under drought stress, all chlorophyll components were strongly positively correlated. Using principal component analysis (PCA), we established comprehensive evaluation models for fruit quality and drought tolerance. Based on these models, seven accessions—H3, H4, H8, H10, H11, H14, and H25—were identified as superior in both drought tolerance and fruit quality. This study provides an integrated evaluation framework for selecting drought-tolerant and high-quality genotypes from interspecific hybrid progenies in blackberry, offering a theoretical basis for utilizing wild Rubus resources in breeding improved cultivars. Full article

Papaya (Carica papaya L.) is a highly cross-pollinated crop that exhibits considerable genetic variability when propagated through seeds, resulting in non-true-to-type progeny. Therefore, the development of an efficient in vitro regeneration system is essential for large-scale clonal propagation of elite cultivars. In the present study, a highly efficient and reproducible somatic embryogenesis protocol was developed for C. papaya var. TNAU Papaya CO 8 using immature zygotic embryos as explants. This study provides the first comprehensive comparative evaluation of three basal media, viz., Murashige and Skoog Medium, N6 Medium, and Woody Plant Medium, for somatic embryogenesis and plant regeneration in this variety, along with the optimization of polyamine-enriched media for enhanced plantlet recovery. The embryogenic potential of explants was assessed across different stages, including callus induction, somatic embryo development, plant regeneration, shoot elongation, rooting, and acclimatization. Maximum callus induction (81.96%) was observed on half-strength MS medium supplemented with 2,4-Dichlorophenoxyacetic acid under dark conditions, followed by ½ N6 (63.00%) and ½ WPM (58.02%). Somatic embryo initiation was highest on ½ MS medium containing 2.0 mgL⁻¹ 2,4-D (77.82%). Somatic embryos developed through distinct globular, heart, torpedo, and cotyledonary stages. Embryo maturation was significantly enhanced on MS medium supplemented with abscisic acid, polyethylene glycol, benzylaminopurine, and proline. The highest plantlet regeneration (85.02%) was achieved on MS medium enriched with putrescine, whereas comparatively lower regeneration was recorded on N6 (75.99%) and WPM (57.97%). Shoot elongation was significantly improved by supplementation with gibberellic acid (1.0 mgL⁻¹). Root induction was optimal on half-strength MS medium containing Indole-3-butyric acid, 1-Naphthaleneacetic acid, phloroglucinol, and activated charcoal, resulting in well-developed roots. Regenerated plantlets were successfully acclimatized in a cocopeat–vermicompost substrate with a survival rate of 74.01%. The optimized protocol provides a reliable and efficient system for large-scale clonal propagation and offers promising applications in genetic transformation and commercial production of papaya var. TNAU papaya CO 8. Full article