Search Results (71)

The Xinglong buffalo is a local swamp buffalo breed adapted to tropical regions in China. To facilitate the protection and utilization of valuable genetic resources, we first developed the breed-specific single nucleotide polymorphism (SNP) liquid-phase chip based on genotyping-by-target-sequencing (GBTS) technology. Whole-genome resequencing data from 143 buffaloes, resulting in 34,757,694 SNPs, were used to identify 1208 breed-specific and 2889 background sites. This chip also incorporates 965 functional SNP sites derived from literature, including SNPs significantly associated with immunity, reproduction, growth, and production. A total of 5062 SNP sites were successfully identified for the development of a 5K liquid-phase genome-wide breeding chip for the Xinglong buffalo. The validation of the chip using 93 samples showed a high detection rate with good repeatability and consistency. In addition, the chip exhibits strong capabilities in clustering and kinship analysis. Results of kinship analysis underscored the importance of a breed-specific chip for the Xinglong buffalo. These results highlight the advantages of a low-density, cost-effective, and breed-specific SNP chip for accurate genotyping. This chip will support future endeavors in molecular breeding, conservation, and genetic evaluation of Xinglong buffalo, thereby facilitating the sustainable utilization of this valuable indigenous germplasm resource. Full article

The Mediterranean soft-shell turtle (Trionyx triunguis) is classified as critically endangered by the IUCN. Effective conservation requires a clear understanding of its reproductive strategies and population structure. By combining mitochondrial DNA tandem repeat-region profiling with genome-wide SNP data obtained through 3RADseq, we gained high-resolution insights into the genetic composition and breeding behavior of Mediterranean populations. Our results revealed complex reproductive dynamics, including multiple paternity, sperm storage, and repeated nesting within a single season—strategies that enhance genetic diversity in small, fragmented populations. Using SNP-based kinship inference, we estimated the number of breeding females and identified full and half-sibling groups, offering a robust genomic framework for assessing population size and structure. Genetic similarity patterns highlighted moderate differentiation among Israeli river populations, suggesting some connectivity, while samples from Türkiye were clearly distinct, reflecting long-term geographic and genetic separation. This integrative approach provides a scalable, repeatable tool for long-term monitoring. The combined use of maternal and biparental markers enables detailed tracking of genetic diversity, breeding contributions, and demographic trends—key elements for designing informed, adaptive conservation strategies. Full article

Western systems of child protection cannot protect First Nations children. Australia’s current child protection systems were born from a legislated and explicit intention of destroying the culture, language and identity of First Nations children, with the aim of assimilating and eliminating First Nations people. The ongoing overrepresentation of our children in ‘child protection’ systems does not so much reflect inherent risks in our families as it does the systemic failures and harm being imposed on our children and families. To ensure the safety of our children, we need to end the systemic and structural racism within Australia’s child protection systems, empower self-determination and commit to addressing the social, economic and cultural determinants that underpin child safety and protection. To achieve this, we need an effective system of care for our children that is best achieved through First Nations systems of child wellbeing and safety that are leading practice. The Aboriginal and Torres Strait Islander Child Placement Principle (ATSICPP), which recognises our systems of kinship care, is one such mechanism. However, it is currently compromised, undermined and underutilised across all Australian jurisdictions. Self-determination requires placing full control and decision-making over the well-being and safety of our children into our hands. Our systems have evolved over 65,000 years and are guided by strict obligations and cultural protocol, and laws. As such, they provide the strong foundation needed for the care and protection of our children. This paper uses a First Nations, rights-based analysis of literature to interrogate the historical foundations and ongoing impact of Australia’s child protection systems on First Nations children and families. It then centres First Nations systems of knowledge and practice as the foundation for a call to replace our current child protection systems with a First Nations Child Safety and Wellbeing system. Full article

This study sought to quantify and characterize diverse rootstock scion interactions in cacao around graft compatibility, disease resistance, nutrient use efficiency, vigor traits, and translocation of nonstructural carbohydrates. In total, 106 grafts were performed with three scion cultivars (Matina 1/6, Criollo 22, Pound 7) and nine diverse open-pollinated seedling populations (BYNC, EQX 3348, GNV 360, IMC 14, PA 107, SCA 6, T 294, T 384, T 484). We found evidence for both local and translocated graft incompatibility. Cross sections and Micro-XCT imaging revealed anatomical anomalies, including necrosis and cavitation at the junction and accumulation of starch in the rootstock directly below the graft junction. Scion genetics were a significant factor in explaining differences in graft take, and graft take varied from 47% (Criollo 22) to 72% (Pound 7). Rootstock and scion identity both accounted for differences in survival over the course of the 30-month greenhouse study, with a low of 28.5% survival of Criollo 22 scions and a high of 72% for Pound 7 scions. Survival by rootstocks varied from 14.3% on GNV 360 to 100% survival on T 294 rootstock. A positive correlation of 0.34 (p = 0.098) was found between the graft success of different rootstock–scion combinations and their kinship coefficient, suggesting that relatedness of stock and scion could be a driver of incompatibility. Significant rootstock–scion effects were also observed for nutrient use efficiency, plant vigor, and resistance to Phytophthora palmivora. These findings, while preliminary in nature, highlight the potential of rootstock breeding to improve plant nutrition, resilience, and disease resistance in cacao. Full article

The improvement in yield in cultivar mixtures has been well established. Despite increasing knowledge of the improvement involving within-species diversification and resource use efficiency, little is known about the benefits arising from relatedness-mediated intraspecific interactions in cultivar mixtures. This study used a relatedness gradient of rice cultivars to test whether neighbor relatedness contributes to improvements in grain yields in cultivar mixtures. We experimentally demonstrated the grain yield of rice cultivar mixtures with varying genetic relatedness under both field and controlled conditions. As a result, a closely related cultivar mixture had increased grain yield compared to monoculture and distantly related mixtures by optimizing the root-to-shoot ratio and accelerating flowering. The benefits over monoculture were most pronounced when compared to the significant yield reductions observed in distantly related mixtures. The relatedness-mediated improvement in yields depended on soil volume and nitrogen use level, with effects attenuating under larger soil volumes or nitrogen deficiency. Furthermore, neighbor relatedness enhanced the richness and diversity of both bacterial and fungal communities in the rhizosphere soil, leading to a significant restructuring of the microbial community composition. These findings suggest that neighbor relatedness may improve the grain yield of rice cultivar mixtures. Beneficial plant–plant interactions may be generated by manipulating cultivar kinship within a crop species. A thorough understanding of kinship strategies in cultivar mixtures offers promising prospects for increasing crop production. Full article

Genomic selection (GS) plays a crucial role in livestock breeding. However, its implementation in Chinese beef cattle breeding is constrained by a limited reference population and incomplete data records. To address these challenges, this study aimed to identify more effective models for multi-population genomic selection. We simulated five different beef cattle populations and selected three populations with varying levels of kinship to investigate the impact of population relationships on genomic prediction. Utilizing results from a genome-wide association study (GWAS), we preselected different proportions of single nucleotide polymorphism (SNP). Subsequently, we employed three models—genomic best linear unbiased prediction (GBLUP), multi-genomic best linear unbiased prediction (MGBLUP), and weighted multi-genomic best linear unbiased prediction (WMGBLUP)—for within-population and multi-population genomic prediction. Our results showed that increasing the size of the training set improved within-population prediction accuracy. Furthermore, both MGBLUP and WMGBLUP outperformed GBLUP in terms of prediction accuracy for both within-population and multi-population analyses. Among the models evaluated, the WMGBLUP model, which utilized the top 5% of preselected SNPs based on GWAS findings, demonstrated superior performance, yielding an improvement of up to 11.1% in within-population prediction and 16.5% in multi-population prediction. In summary, both WMGBLUP and MGBLUP models exhibit enhanced efficacy in improving genomic prediction accuracy, and the incorporation of GWAS results can further optimize their performance. Full article

Wheat exhibits moderate tolerance to salinity. The increasing salinization of arable land poses a significant risk to future wheat production. Therefore, it is imperative to expedite the genetic breeding of wheat for enhanced salt tolerance. This study investigates the genetic and phenotypic diversity of 90 wheat varieties under salt stress, utilizing a comprehensive approach involving trait distribution analysis, hierarchical clustering, kinship estimation, and low-density association analysis. The phenotypic analysis of key agronomic traits revealed significant variability in traits such as leaf area index, canopy temperature, grain area, dry weight, harvest index, grain yield, and tiller number. Most traits exhibited a near-normal distribution, with a few parameters showing skewed or bimodal distributions, indicating the presence of subpopulations with distinct trait profiles. The hierarchical clustering analysis identified five distinct genetic clusters among the wheat varieties, highlighting the complex genetic relationships and variations in salt stress tolerance. Kinship estimates further confirmed the presence of genetic divergence among the accessions, with a majority showing weak or null relationships. Statistical models for association analysis revealed the effectiveness of the Generalized Linear Mixed Model (GLMM) in detecting a greater number of significant genetic markers associated with key agronomic traits, with the GLMM explaining a higher proportion of phenotypic variation. The findings underline the importance of genetic diversity in wheat breeding programs aimed at improving salt stress tolerance and agronomic performance. These results provide valuable insights for future breeding strategies, focusing on the optimization of key traits and marker-assisted selection for the development of salt-tolerant wheat cultivars. Full article

Microhaplotypes (MHs) are a novel class of genetic markers, exhibiting features that position them as an alternative to STRs and SNPs in addressing challenges commonly encountered in forensic investigations. Additionally, MHs can also offer valuable insights for ancestry inference. However, due to the novelty of MHs, extensive research in different global populations is required before implementation in forensic casework and general research. In this study, individuals from Afghanistan and Somalia were characterized with the Ion AmpliSeq™ MH-74 Plex Research Panel previously developed for forensic genetic purposes. A total of 84 Afghan and 89 Somalian samples were sequenced on the Ion GeneStudio™ S5 System. This led to the identification of 32 and 42 single nucleotide variants in the Afghan and Somalian populations, respectively, that were not included in the former MH definitions. Most of the observed variants were considered to be rare occurrences, being observed one or two times in the dataset. The average values of the effective number of alleles (A_e) were 3.7 for Somalia and 3.6 for Afghanistan—pointing to elevated intrapopulation diversities compared to Europeans. Other parameters (H_o, H_e, PIC, PD, and PE) consistently showed higher average values in the Afghans and Somalis compared to the previously studied populations. PCA and STRUCTURE analyses with 1000 Genomes samples assigned the Somalis to a different cluster than the other sub-Saharan African populations. The analyses also showed higher European and East Asian co-ancestry in the Afghans than in the remaining South Asian populations. The capability of the MH-74 plex to address common kinship problems was evaluated through computational simulations, considering generic thresholds differing by one order of magnitude to assess the FDRs. The median LR > 10¹³ for true siblings when the hypotheses ‘full siblings’ and ‘unrelated individuals’ were compared. As expected, the median LRs were much lower for simulated half-siblings and cousins. This work evaluated the forensic potential of MHs in understudied populations. Overall, the studied panel was versatile and capable of being applied in different forensic applications. Full article

Background/Objectives: Dense genetic marker panels are increasingly used in kinship analysis for the identification of distant relatives. As more markers are available, it is possible to pinpoint IBD segments more precisely and more reliably, ultimately approaching close to continuously observed IBD. This study investigates the evidential value obtained for discrimination between common pedigree relationships if IBD is observed continuously across the autosomal genome without error. In the continuous case, the evidential value is limited only by the pedigree relationship and the recombination rates. Methods: We conducted simulations to generate IBD segments across the autosomal genome for individuals with defined pedigree relationships. The evidential value for relationship discrimination was then calculated exactly from the underlying model, assuming no genotyping error and full genome coverage. Results: The simulations show that the ability to distinguish pedigree relationships quickly diminishes as relationships become more distant. First cousins can be distinguished from second cousins with 99.9% accuracy which drops to 94% when distinguishing second and third cousins. Relationships with the same expected degree of relatedness can be discriminated using continuously observed IBD, although the effectiveness decreases with more distant relationships. Conclusions: Continuous IBD observation establishes a theoretical upper bound on the power to distinguish relationships if a large but finite number of markers is used. The findings provide a benchmark for evaluating kinship analyses based on finite genetic marker panels. Full article

Education plays an essential role in ensuring the social sustainability of blood donation. As altruism may be insufficient to support donor engagement, this study assesses the effectiveness of incentives on ensuring the social sustainability of blood donation. A self-administered questionnaire was used to collect data from 319 medical students about socio-demographic variables, donation frequency, altruism dimensions (impure, self-regarding, reluctant, egalitarian warm glow, and kinship), the perceived importance of monetary (travel compensation, meal vouchers) and non-monetary incentives (free blood screening, paid leave, refreshments, recognition gifts), and willingness to donate during a blood donation social marketing campaign in November 2021 and November 2022. Data were analyzed in SPSS 20 using chi-square, ANOVA tests, and multiple regression models. The key findings indicate no significant associations between donor categories and incentives, but meal vouchers, free medical testing, refreshments, and recognition gifts were linked to self-regarding altruism. Additionally, neither incentives, altruism dimensions, nor their interaction predicted willingness to donate blood. These findings highlight the need for education-driven approaches to ensure a long-term commitment of blood donors, by integrating educational, sustainable curricular or extracurricular activities. Integrating blood donation awareness into formal education may cultivate a culture of civic responsibility, expanding the donor pool and strengthening the social sustainability of blood donation. Full article

Business groups comprise independently owned firms based on different types of owner solidarity, such as kinship, ethnicity, religion, or political identity. However, research has been slow to account for how the adverse effects of ethnic solidarity influence BG-affiliate firm performance. We investigate the interplay of owner ethnicity and their firms’ innovation and export performance. We find variations in affiliates’ performance based on their self-identified ethnicities by analyzing data from the World Bank’s Enterprise Surveys (WBES) across 20 sub-Saharan African countries. Notably, long-established migrant communities, including Indian, Middle Eastern, and European entrepreneurs, experienced waning performance within the BG structure. In contrast, group-affiliated firms led by Chinese entrepreneurs show significant outperformance compared to their African counterparts and minority group affiliates. This study contributes to a novel understanding of the heterogeneous relationship between ethnic solidarity and BG-affiliated firms’ performance across sub-Saharan Africa. Full article

Conspecific plants exhibit morphological and biochemical plasticity in response to genetic relatedness in varying environments. However, the response strategies and factors influencing kin recognition in plants remain unclear. Meta-analysis is an approach to synthesize the effect size of plant–plant and plant–environment interactions. Here, we present the first case of a meta-analysis for response strategies and interfering factors in relatedness-mediated plant–plant interactions. We synthesized the effect of kin recognition on plant performance and environmental factors, based on 104 studies with 4045 cases. As a result, we found that kin recognition reduces root biomass, root length, root–shoot ratio, and lateral root number, lowering belowground competition. Furthermore, kin cooperation enhances aboveground light acquisition by increasing leaf area and boosts reproductive success by increasing seed biomass. The kinship effects are significantly influenced by both biotic (e.g., root interactions, kinship coefficient r, sex systems, recognition level) and abiotic factors (e.g., nutrient levels, experiment types, stress type, planting spacing and duration). Our meta-analysis highlights the response strategies and interfering factors of kin recognition in plant performance and environment dynamics, laying the foundation for further research on its ecological evolution and agricultural applications. Full article

Farmers’ decision-making behavior is shaped by familial intergenerational ties and neighborhood relations, yet research often treats them as independent decision-makers, overlooking these critical dynamics. This oversight can undermine the effectiveness of policies on farmland quality. Using micro-survey data from 1045 maize farmers in Gansu Province, China, this study explores farmers’ fertilizer reduction behavior through a theoretical framework that incorporates intergenerational behavioral transmission and neighborhood effects. Economically optimal fertilizer usage was calculated using the Cobb–Douglas production function, with hierarchical regression models and instrumental variable methods employed for analysis. Our findings reveal the following: (1) The Cobb–Douglas production function indicates that 74.1% of farmers apply more fertilizer than the economically optimal amount. (2) Effective intergenerational behavioral transmission and positive neighborhood effects significantly promote farmers’ adoption of reduced fertilizer application practices, with neighborhood effects further enhancing the effects of intergenerational behavioral transmission. (3) Stronger neighborhood effects not only enhance the positive impact of effective intergenerational behavioral transmission but also mitigate the negative impact of ineffective transmission. Additionally, neighborhood effects mediate the relationship between intergenerational behavioral transmission and fertilizer reduction. This study highlights the importance of kinship and neighborhood dynamics in shaping farmers’ fertilizer use and provides insights for designing more effective farmland quality protection policies. By acknowledging these relational factors, governments can better promote sustainable agricultural practices and minimize excessive fertilizer application. Full article

Many important plants’ agronomic traits, such as crop yield, stress tolerance, and other traits, are controlled by multiple genes and exhibit complex inheritance patterns. Traditional breeding methods often encounter difficulties in dealing with these traits due to their complexity. However, genomic selection (GS), which utilizes high-density molecular markers across the entire genome to facilitate selection in breeding programs, excels in capturing the genetic variation associated with these traits. This enables more accurate and efficient selection in breeding. The traditional crop genome selection model, based on statistical methods or machine learning models, often treats samples as independent entities while neglecting the abundance latent relational information among them. Consequently, this limitation hampers their predictive performance. In this study, we proposed a novel crop genome selection model based on hypergraph attention networks for genomic prediction (HGATGS). This model incorporates dynamic hyperedges that are designed based on sample similarity to validate the efficacy of high-order relationships between samples for phenotypic prediction. By introducing an attention mechanism, it assigns weights to different hyperedges and nodes, thereby enhancing the ability to capture kinship relationships among samples. Additionally, residual connections are incorporated between hypergraph convolutional layers to further improve model stability and performance. The model was validated on datasets for multiple crops, including wheat, corn, and rice. The results showed that HGATGS significantly outperformed traditional statistical methods and machine learning models on the Wheat 599, Rice 299, and G2F 2017 datasets. On Wheat 599, HGATGS achieved a correlation coefficient of 0.54, a 14.9% improvement over methods like R-BLUP and BayesA (0.47). On Rice 299, HGATGS reached 0.45, a 66.7% increase compared to other models like R-BLUP and SVR (0.27). On G2F 2017, HGATGS attained 0.88, slightly surpassing other models like R-BLUP and BayesA (0.87). We conducted ablation experiments to compare the model’s performance across three datasets, and found that the model integrating hypergraph attention and residual connections performed optimally. Subsequent comparisons of the model’s prediction performance with dynamically selected different k values revealed optimal performance when K = (3,4). The model’s prediction performance was also compared across different single nucleotide polymorphisms (SNPs) and sample sizes in various datasets, with HGATGS consistently outperforming the comparison models. Finally, visualizations of the constructed hypergraph structures showed that certain nodes have high connection densities with hyperedges. These nodes often represent varieties or genotypes with significant impacts on traits. During feature aggregation, these high-connectivity nodes contribute significantly to the prediction results and demonstrate better prediction performance across multiple traits in multiple crops. This demonstrates that the method of constructing hypergraphs through correlation relationships for prediction is highly effective. Full article

In the Qumran War Scroll (1QM) 1:1–15 and 1 Thessalonians 5:1–11, almost the same eschatological interpretative framework is created with words from the semantic domains of light and darkness, kinship, war, ethics, divinity and time. Although the constructed frameworks in these texts look alike, their impact on the self-understanding of the respective Qumran and Thessalonian communities is different. This article aims to reconstruct these frameworks from the texts by using semantic dictionaries and to reconstruct the probable impact of these frameworks on the self-understanding of the communities by utilizing some insights from sociolinguistics. It shows that although communities around the beginning of the era used almost the same frameworks, the effect on group identities could be significantly different. Full article