Sesame(Sesamum indicum L.)is an ancient diploid oilseed crop valued for its high oil content,quality protein,unsaturated fatty acids,and antioxidants.The emerging research focuses on the utilization of vegetable prote...Sesame(Sesamum indicum L.)is an ancient diploid oilseed crop valued for its high oil content,quality protein,unsaturated fatty acids,and antioxidants.The emerging research focuses on the utilization of vegetable proteins in the development of novel products and the formulation of functional foods.Developing sesame genotypes with higher protein and oil content is a current focus for improving sesame quality traits,as preferred by the sesame seed oil industry and consumers.Despite previous genome-wide association studies(GWAS)on various agronomic and biochemical traits in sesame,the genetic basis of protein content and oil content remains limited.Therefore,this study was designed to identify candidate genes and quantitative trait loci(QTLs)regulating the target traits using 401 sesame accessions grown in three environments(2018WH,2018LQ,and 2022WH).The protein and oil content in the sesame population varied significantly.The protein content ranged from 15.06%to 26.45%,while the oil content was between 41.68%and 60.15%.Furthermore,the white seeds had a higher oil content,while the black seeds had a higher protein content,indicating an association between seed colour and oil and protein content.GWAS results revealed that 632 and 269 QTLs were selected as significant genetic regions for protein and oil content,respectively.Of these significant QTLs,we identified 10 and 22 stable QTLs for protein and oil content,respectively.A total of 17 candidate genes related to protein and oil content were identified within 32 stable quantitative trait loci(QTLs).Interestingly,two variant sites,SNP13:10093594 and In Del13:10935497,related to protein content,were identified in the gene sequences of SINPZ1300586 and SINPZ1300694.Four SNPs,SNP1:22608987,SNP4:13355820,SNP8:21686488,and SNP11:142842,for oil content were found correspond to the genes SINPZ0102106,SINPZ0401222,SINPZ0801731,and SINPZ1100015,respectively.The findings provide light on the genetic basis of protein and oil characteristics.These genes and QTLs can aid the molecular breeding and genetic engineering of innovative sesame germplasm,with improved potential for protein and oil content,as well as desired quality attributes.展开更多
Mindfulness would enhance university students’emotional well-being and study engagement.However,the role of affect(positive and negative emotions)and psychological resources(psychological capital)linking mindfulness ...Mindfulness would enhance university students’emotional well-being and study engagement.However,the role of affect(positive and negative emotions)and psychological resources(psychological capital)linking mindfulness to study engagement remain underexplored.This cross-sectional study surveyed 688 Chinese university students(females=413,mean age=20.3,SD=0.83),using validated self-report measures of mindfulness,positive and negative emotions,psychological capital,and study engagement.Structural equation modeling and bias-corrected bootstrap analyses(5000 resamples)revealed that mindfulness directly enhanced positive emotions,psychological capital,and study engagement,while reducing negative emotions.Positive emotions partially mediated the positive effect of mindfulness on psychological capital and study engagement.Negative emotions partially and negatively mediated only the mindfulness-psychological capital link.Psychological capital independently mediated the mindfulness-engagement relationship,and two sequential mediation pathways emerged:(a)mindfulness→positive emotions→psychological capital→higher study engagement and(b)mindfulness→reduced negative emotions→psychological capital→higher study engagement.Consistent with broaden-and-build(B&B)theory and Conservation of Resources(COR)theory,these findings suggest that mindfulness fosters study engagement primarily by promoting positive emotional experiences and strengthening psychological capital.By implication,university student support programs should employ mindfulness-based interventions to cultivate emotional and psychological resources for higher students’engagement and overall well-being.展开更多
BACKGROUND Gastrointestinal endoscopy technology has significantly improved the diagnostic accuracy and the successful treatment of gastrointestinal diseases.However,a series of ethical issues have emerged,such as exp...BACKGROUND Gastrointestinal endoscopy technology has significantly improved the diagnostic accuracy and the successful treatment of gastrointestinal diseases.However,a series of ethical issues have emerged,such as expanding treatment indications,which affect the fair distribution of medical resources.There is limited research on ethical issues in the field of digestive endoscopy.AIM To investigate the level of ethical awareness among gastrointestinal endoscopy practitioners and analyze the ethical issues involved in gastrointestinal endoscopy technology.METHODS A questionnaire survey was performed to collect relevant data(gender,age,degree of education,professional title,personnel category,the level of understanding medical ethical principles,ethics training and its learning pathways)from gastrointestinal endoscopy practitioners at the Second Hospital of Dalian Medical University and Dalian Friendship Hospital,including licensed physicians and nurses(including trainees and graduate students).RESULTS The majority of gastrointestinal endoscopy practitioners have received training on ethics,but there is still considerable room for improvement in their ethical awareness.Different learning pathways may affect the mastery of ethical principles, and understanding of ethical principles is more easily achieved through hospital ethics institutions.CONCLUSIONTo address the ethical issues in gastrointestinal endoscopy technology, it is necessary to enhance the humanisticeducation of gastrointestinal endoscopy practitioners, incorporate ethical standards into the technology assessmentprocess, and establish a patient-centered diagnostic and treatment model to improve the ethical awareness of practitionersand achieve a balance between technology and ethics.展开更多
The Leafminers,representing a diverse group of insects from various genera within the Agromyzidae family,pose a significant threat to spinach(Spinacia oleracea L.)production.This study aimed to identify single nucleot...The Leafminers,representing a diverse group of insects from various genera within the Agromyzidae family,pose a significant threat to spinach(Spinacia oleracea L.)production.This study aimed to identify single nucleotide polymorphism(SNP)markers associated with leafminer resistance through a genome-wide association study(GWAS)and to evaluate the prediction accuracy(PA)for selecting resistant spinach using genomic prediction(GP).Using a dataset of 84301 SNPs obtained from whole-genome resequencing,seven GWAS models,including BLINK,FarmCPU,MLM,and MLMM in GAPIT 3,as well as MLM,GLM,and SMR in TASSEL 5,were employed to perform GWAS on a panel of 286 USDA spinach germplasm accessions.Three SNP markers,namely 1_115279256_C_T,3_157082529_C_T,and 4_168510908_T_G on chromosomes 1,3,and 4,respectively,were identified as associated with leafminer resistance.In the 30 kb flanking regions of these markers,four candidate genes(SOV1g031330,SOV1g031340,SOV4g047270,and SOV4g047280),encoding LOB domain-containing protein,KH domain-containing protein,were discovered.Nodulin-like domain-containing protein,and SAM domain-containing protein,were discovered.The PA for leafminer resistance selection was estimated using ten different SNP sets,including two GWAS-derived marker sets(three and 51 SNPs)and eight random marker sets(ranging from 51 to 10 K SNPs)analyzed by seven GP models.The findings emphasized the superior performance of GWAS-derived SNP sets,reaching a PA of up to 0.79 using the cBLUP model.Notably,this research marks the pioneering application of GP in the context of insect resistance,providing a significant advancement in the understanding and management of leafminer resistance in spinach cultivation.展开更多
AIM:To investigate the potential causal associations between 41 inflammatory cytokines and myopia using a two-sample Mendelian randomization(MR)approach.METHODS:Publicly available genome-wide association study(GWAS)da...AIM:To investigate the potential causal associations between 41 inflammatory cytokines and myopia using a two-sample Mendelian randomization(MR)approach.METHODS:Publicly available genome-wide association study(GWAS)datasets were utilized for this two-sample MR analysis.Inflammatory cytokine-related GWAS data were extracted from The University of Bristol’s Research Data Repository,and myopia-related GWAS data were obtained from the FinnGen project.Single nucleotide polymorphisms(SNPs)associated with inflammatory cytokines were systematically selected as instrumental variables(IVs)based on three rigorous criteria:relevance,independence,and exclusion of pleiotropy.Five MR methods were employed for causal inference:the inverse-variance weighted(IVW)method as the primary analysis,supplemented by MREgger regression,weighted median estimator,simple mode,and weighted mode approaches.Sensitivity analyses were performed to evaluate the robustness of the causal estimates.RESULTS:A total of 773 myopia-associated SNPs were identified.MR analysis revealed that higher levels of macrophage inflammatory protein 1-α(MIP-1α)were associated with a 17%reduced risk of myopia[odds ratio(OR)=0.83;95%confidence interval(CI):0.69-0.99;P<0.05].In contrast,elevated levels of eotaxin(OR=1.26;95%CI:1.07-1.47;P<0.01),stromal cell-derived factor-1α(SDF-1α;OR=1.68;95%CI:1.08-2.62;P<0.05),and interleukin-2 receptor subunit alpha(IL-2Rα;OR=1.25;95%CI:1.01-1.53;P<0.05)were significantly associated with an increased risk of myopia.Sensitivity analyses confirmed the reliability of these results.CONCLUSION:This study provides evidence supporting a causal relationship between specific inflammatory cytokines and myopia.MIP-1αmay act as a protective factor against myopia,while eotaxin,SDF-1α,and IL-2Rαare potential risk factors for myopia.These findings emphasize the critical role of inflammatory pathways in the pathogenesis of myopia,offering novel insights for the development of preventive and therapeutic strategies for myopia.展开更多
Background:Despite highly effective vaccines against SARS-CoV-2,COVID-19 vaccine hesitancy persisted in some populations in England during the pandemic,with rates and motivations for hesitancy varying by demographic g...Background:Despite highly effective vaccines against SARS-CoV-2,COVID-19 vaccine hesitancy persisted in some populations in England during the pandemic,with rates and motivations for hesitancy varying by demographic group.Addressing the drivers of vaccine hesitancy through targeted interventions in hesitant groups is a public health priority for better and more rapid control of disease spread.We aimed to characterise the determinants and subtypes of vaccine hesitancy and identify more persistent forms of hesitancy via analysis of vaccine uptake in a large cross-sectional cohort with linked National Health Service(NHS)data.展开更多
Background:To determine whether initiating a glucagon-like peptide-1 receptor agonist(GLP-1 RA)within 3 months of type 2 diabetes(T2DM)diagnosis alters the subsequent risk of overall and site-specific cancer and wheth...Background:To determine whether initiating a glucagon-like peptide-1 receptor agonist(GLP-1 RA)within 3 months of type 2 diabetes(T2DM)diagnosis alters the subsequent risk of overall and site-specific cancer and whether this association differs by baseline body-mass index(BMI).Methods:This retrospective cohort study used electronic health records from the TriNetX U.S.research network.Adults aged 20 years or older diagnosed with T2DM between 2016 and 2024 were included if they received any hypoglycemic agents within 3 months before and after diagnosis.Following 1:1 propensity score matching,both the GLP-1 RA user and non-user groups included 183,264 patients.The study outcome was defined as a diagnosis of malignant neoplasms.Hazard ratios(HRs)for overall and site-specific cancer risk were estimated using Cox proportional hazards models.Kaplan–Meier analysis and stratified analysis by BMI were performed.Results:Early GLP-1 RA use demonstrated a modest but significant association with reduced overall cancer risk(HR 0.93;95%CI:0.90–0.96).Reduced risks were noted for cancers of the digestive(HR 0.81),respiratory(HR 0.66),and female genital(HR 0.87)systems.In stratified analysis,benefits were more pronounced in patients with BMI≥30,particularly for pancreatic and colorectal cancers.Conclusion:Early initiation of GLP-1 receptor agonists in patients with diagnosed T2DM was associated with a modest reduction in overall cancer risk,particularly among individuals with obesity.These findings highlight the dual metabolic and oncologic value of prompt GLP-1 RA therapy.展开更多
背景:近期研究表明,肠道菌群可能会影响肌萎缩侧索硬化症的发展进程,然而两者之间的因果关系尚不清楚。目的:利用孟德尔随机化方法探索肠道菌群与肌萎缩侧索硬化症之间的因果关系。方法:从IEU Open GWAS数据库(由英国布里斯托尔大学的...背景:近期研究表明,肠道菌群可能会影响肌萎缩侧索硬化症的发展进程,然而两者之间的因果关系尚不清楚。目的:利用孟德尔随机化方法探索肠道菌群与肌萎缩侧索硬化症之间的因果关系。方法:从IEU Open GWAS数据库(由英国布里斯托尔大学的英国医学研究委员会和遗传流行病学研究所开发,旨在提供与多种疾病相关的全基因组关联研究数据,为开放数据库)中分别获取肠道菌群和肌萎缩侧索硬化症的GWAS数据,以肠道菌群为暴露因素、肌萎缩侧索硬化症为结局变量,使用逆方差加权法、MR-Egger回归法、加权中位数法、加权模型法和简单模型法来探究两者之间的因果关系。使用敏感性分析检验孟德尔随机化结果的可靠性,使用反向孟德尔随机化分析进一步验证两者间的因果关系。结果与结论:(1)正向孟德尔随机化分析结果表明,6种肠道菌群与肌萎缩侧索硬化症之间存在因果关系,其中嗜胆菌属(β=0.206,OR=1.229)、毛螺菌属(β=0.288,OR=1.333)、马文-布莱恩特氏菌属(β=0.196,OR=1.216)、瘤胃球菌UCG010属(β=0.254,OR=1.289)和泰泽氏菌属3型(β=0.128,OR=1.136)可能是肌萎缩侧索硬化症的潜在危险因素,肠杆菌属(β=-0.203,OR=0.816)可能是肌萎缩侧索硬化症的保护因素;(2)在敏感性分析中,未发现显著的异质性和水平多效性(P均> 0.05),反向孟德尔随机化分析亦未揭示肠道菌群与肌萎缩侧索硬化症之间存在反向因果关系;(3)该研究结果不仅为肌萎缩侧索硬化症治疗提供了潜在的生物标志物,还为开发基于肠道菌群的新的干预治疗方案提供了理论依据,对中国基础医学研究具有一定的启示意义。展开更多
籽粒百粒重是大豆产量构成三要素之一,百粒重大小决定大豆产量并影响其商品性,百粒重也是大豆遗传改良关键性状。为进一步挖掘籽粒大小相关基因,解析籽粒大小的调控机制。利用碳离子束(Carbon Ion Beam,CIB)辐射野生大豆(ZYD7068),构建...籽粒百粒重是大豆产量构成三要素之一,百粒重大小决定大豆产量并影响其商品性,百粒重也是大豆遗传改良关键性状。为进一步挖掘籽粒大小相关基因,解析籽粒大小的调控机制。利用碳离子束(Carbon Ion Beam,CIB)辐射野生大豆(ZYD7068),构建了200份百粒重变异丰富的野生大豆突变群体。结果表明,群体籽粒百粒重在4.37~16.74 g之间,平均值为7.13 g,突变群体百粒重较野生大豆百粒重提高了4.98倍。对200个突变体采用全基因组测序,共获得184.1亿bp的测序数据,基因组覆盖率68.10%~70.96%。突变主要是单碱基突变(SNP),其中C到T突变占突变总数的40%。对候选SNP基因进行富集分析,突变基因主要富集在Go:0009626(植物超敏反应)、Go:0034050(共生体诱导宿主程序性细胞死亡)、Go:0012501(程序性细胞死亡)、Go:0043680(丝状器)以及Go:0045087(先天免疫反应)等途径。利用全基因组测序获得的SNPs标记,采用MLM模型,对突变群体籽粒百粒重进行全基因组关联分析(Genome-Wide Association GWAS),共检测到71个关联SNPs(-lgP>11),分别位于大豆2、3、5、6、9、10、14、16、18号染色体上,其中5、10号染色体和14号染色体以及18号染色体分别检测到9、21、9、23个SNPs,71个关联SNPs位点涉及33个基因。展开更多
辣椒红色素是目前全球销量最大的纯天然可食用色素,培育高辣椒红色素品种为辣椒产业重要任务。通过对255份一年生栽培种辣椒核心种质的辣椒红素含量进行全基因组关联分析(genome-wide association study,GWAS),在第1、2、3、5、6、8、9...辣椒红色素是目前全球销量最大的纯天然可食用色素,培育高辣椒红色素品种为辣椒产业重要任务。通过对255份一年生栽培种辣椒核心种质的辣椒红素含量进行全基因组关联分析(genome-wide association study,GWAS),在第1、2、3、5、6、8、9、10、11和12号染色体均关联到与辣椒红素含量显著相关的区间,关联区间内共包括93个基因,根据功能注释和转录表达数据预测了3个影响辣椒果实中辣椒红素含量的候选基因。通过对高辣椒红色素材料Pep-340、低辣椒红色素材料Pep-276构建的F2群体进行混合分组分析法-测序(bulked segregant analysis-sequencing,BSA-seq)分析,在第1、3、5和10号染色体定位到与辣椒红色素含量相关区间,其中第3和5号染色体上的定位区间与GWAS分析中的显著相关区间相近或重合;利用这两个区间的In Del分子标记,进行遗传连锁分析,将调控辣椒红色素含量基因定位在3号染色体的q CC3.1,物理位置为22.8~25.9 Mb,其中含有99个基因,根据功能注释和转录组分析,预测了4个影响辣椒果实中辣椒红色素含量的候选基因Capana03g001314、Capana03g001325、Capana03g001334和Capana03g001387。研究结果为调控辣椒中辣椒红色素含量基因精细定位及分子标记辅助选择育种奠定基础。展开更多
Wheat powdery mildew(Blumeria graminis f.sp.tritici, Bgt) is a disease of increasing importance globally due to the adoption of high yielding varieties and modern sustainable farming technologies.Growing resistant cul...Wheat powdery mildew(Blumeria graminis f.sp.tritici, Bgt) is a disease of increasing importance globally due to the adoption of high yielding varieties and modern sustainable farming technologies.Growing resistant cultivars is a preferred approach to managing this disease, and novel powdery mildew resistance genes are urgently needed for new cultivar development.A genome-wide association study was performed on a panel of 1292 wheat landraces and historical cultivars using 5011 single nucleotide polymorphism(SNP)markers.The association panel was evaluated for reactions to three Bgt inoculants, OKS(14)-B-3-1, OKS(14)-C-2-1, and Bgt15.Linkage disequilibrum(LD) analysis indicated that genome-wide LD decayed to 0.1 at 23 Mb, and population structure analysis revealed seven subgroups in the panel.Association analysis using a mixed linear model(MLM) identified three loci for powdery mildew resistance on chromosome 2 B, designated QPm.stars-2BL1,QPm.stars-2BL2, and QPm.stars-2BL3.To evaluate the efficacy of GWAS in gene discovery,QPm.stars-2BL2 was validated using F2 and F2:3 populations derived from PI420646 × OK1059060-126135-3.Linkage analysis delimited the powdery mildew resistance gene in PI 420646 to an interval where QPm.stars-2BL2 was located, lending credence to the GWAS results.QPm.stars-2BL1 and QPm.stars-2BL3, which were associated with four SNPs located at 457.7–461.7 Mb and two SNPs located at 696.6–715.9 Mb in the Chinese Spring reference IWGSC RefSeq v1.0, respectively, are likely novel loci for powdery mildew resistance and can be used in wheat breeding to improve powdery mildew resistance.展开更多
Genome-wide association studies （GWASs） have identified thousands of genes and genetic variants （mainly SNPs） that contribute to complex diseases in humans. Functional characterization and mechanistic elucidation ...Genome-wide association studies （GWASs） have identified thousands of genes and genetic variants （mainly SNPs） that contribute to complex diseases in humans. Functional characterization and mechanistic elucidation of these SNPs and genes action are the next major challenge. It has been well established that SNPs altering the amino acids of protein-coding genes can drastically impact protein function, and play an important role in molecular pathogenesis. Functions of regulatory SNPs can be complex and elusive, and involve gene expression regulation through the effect on RNA splicing, transcription factor binding, DNA metbylation and miRNA recruitment. In the present review, we summarize the recent progress in our understanding of functional consequences of GWAS-associated non-coding regulatory SNPs, and discuss the application of systems genetics and network biology in the interpretation of GWAS findings.展开更多
基金funded by the National Key Research and Development Program of China(2024YFD1600100)the Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences(CAAS-ASTIP-2021-OCRI)+3 种基金China Agriculture Research System(CARS-14)Hubei International Science and Technology Cooperation Project(2024EHA055)Science and Technology Innovation Project of Hubei province(2024-620-000-001-031)Fundamental Research Funds for Central Non-profit Scientific Institution(1610172023003)。
文摘Sesame(Sesamum indicum L.)is an ancient diploid oilseed crop valued for its high oil content,quality protein,unsaturated fatty acids,and antioxidants.The emerging research focuses on the utilization of vegetable proteins in the development of novel products and the formulation of functional foods.Developing sesame genotypes with higher protein and oil content is a current focus for improving sesame quality traits,as preferred by the sesame seed oil industry and consumers.Despite previous genome-wide association studies(GWAS)on various agronomic and biochemical traits in sesame,the genetic basis of protein content and oil content remains limited.Therefore,this study was designed to identify candidate genes and quantitative trait loci(QTLs)regulating the target traits using 401 sesame accessions grown in three environments(2018WH,2018LQ,and 2022WH).The protein and oil content in the sesame population varied significantly.The protein content ranged from 15.06%to 26.45%,while the oil content was between 41.68%and 60.15%.Furthermore,the white seeds had a higher oil content,while the black seeds had a higher protein content,indicating an association between seed colour and oil and protein content.GWAS results revealed that 632 and 269 QTLs were selected as significant genetic regions for protein and oil content,respectively.Of these significant QTLs,we identified 10 and 22 stable QTLs for protein and oil content,respectively.A total of 17 candidate genes related to protein and oil content were identified within 32 stable quantitative trait loci(QTLs).Interestingly,two variant sites,SNP13:10093594 and In Del13:10935497,related to protein content,were identified in the gene sequences of SINPZ1300586 and SINPZ1300694.Four SNPs,SNP1:22608987,SNP4:13355820,SNP8:21686488,and SNP11:142842,for oil content were found correspond to the genes SINPZ0102106,SINPZ0401222,SINPZ0801731,and SINPZ1100015,respectively.The findings provide light on the genetic basis of protein and oil characteristics.These genes and QTLs can aid the molecular breeding and genetic engineering of innovative sesame germplasm,with improved potential for protein and oil content,as well as desired quality attributes.
文摘Mindfulness would enhance university students’emotional well-being and study engagement.However,the role of affect(positive and negative emotions)and psychological resources(psychological capital)linking mindfulness to study engagement remain underexplored.This cross-sectional study surveyed 688 Chinese university students(females=413,mean age=20.3,SD=0.83),using validated self-report measures of mindfulness,positive and negative emotions,psychological capital,and study engagement.Structural equation modeling and bias-corrected bootstrap analyses(5000 resamples)revealed that mindfulness directly enhanced positive emotions,psychological capital,and study engagement,while reducing negative emotions.Positive emotions partially mediated the positive effect of mindfulness on psychological capital and study engagement.Negative emotions partially and negatively mediated only the mindfulness-psychological capital link.Psychological capital independently mediated the mindfulness-engagement relationship,and two sequential mediation pathways emerged:(a)mindfulness→positive emotions→psychological capital→higher study engagement and(b)mindfulness→reduced negative emotions→psychological capital→higher study engagement.Consistent with broaden-and-build(B&B)theory and Conservation of Resources(COR)theory,these findings suggest that mindfulness fosters study engagement primarily by promoting positive emotional experiences and strengthening psychological capital.By implication,university student support programs should employ mindfulness-based interventions to cultivate emotional and psychological resources for higher students’engagement and overall well-being.
文摘BACKGROUND Gastrointestinal endoscopy technology has significantly improved the diagnostic accuracy and the successful treatment of gastrointestinal diseases.However,a series of ethical issues have emerged,such as expanding treatment indications,which affect the fair distribution of medical resources.There is limited research on ethical issues in the field of digestive endoscopy.AIM To investigate the level of ethical awareness among gastrointestinal endoscopy practitioners and analyze the ethical issues involved in gastrointestinal endoscopy technology.METHODS A questionnaire survey was performed to collect relevant data(gender,age,degree of education,professional title,personnel category,the level of understanding medical ethical principles,ethics training and its learning pathways)from gastrointestinal endoscopy practitioners at the Second Hospital of Dalian Medical University and Dalian Friendship Hospital,including licensed physicians and nurses(including trainees and graduate students).RESULTS The majority of gastrointestinal endoscopy practitioners have received training on ethics,but there is still considerable room for improvement in their ethical awareness.Different learning pathways may affect the mastery of ethical principles, and understanding of ethical principles is more easily achieved through hospital ethics institutions.CONCLUSIONTo address the ethical issues in gastrointestinal endoscopy technology, it is necessary to enhance the humanisticeducation of gastrointestinal endoscopy practitioners, incorporate ethical standards into the technology assessmentprocess, and establish a patient-centered diagnostic and treatment model to improve the ethical awareness of practitionersand achieve a balance between technology and ethics.
基金supported by USDA-SCRI(Grant Nos.2017-51181-26830 and 2023-51181-41321)USDA-AMS SCMP(Grant No.16SCCMAR0001)+1 种基金Arkansas Department of Agriculture SCBGP(Grant No.AM22SCBGPAR1130-00)USDA NIFA Hatch project ARK0VG2018 and ARK02440.
文摘The Leafminers,representing a diverse group of insects from various genera within the Agromyzidae family,pose a significant threat to spinach(Spinacia oleracea L.)production.This study aimed to identify single nucleotide polymorphism(SNP)markers associated with leafminer resistance through a genome-wide association study(GWAS)and to evaluate the prediction accuracy(PA)for selecting resistant spinach using genomic prediction(GP).Using a dataset of 84301 SNPs obtained from whole-genome resequencing,seven GWAS models,including BLINK,FarmCPU,MLM,and MLMM in GAPIT 3,as well as MLM,GLM,and SMR in TASSEL 5,were employed to perform GWAS on a panel of 286 USDA spinach germplasm accessions.Three SNP markers,namely 1_115279256_C_T,3_157082529_C_T,and 4_168510908_T_G on chromosomes 1,3,and 4,respectively,were identified as associated with leafminer resistance.In the 30 kb flanking regions of these markers,four candidate genes(SOV1g031330,SOV1g031340,SOV4g047270,and SOV4g047280),encoding LOB domain-containing protein,KH domain-containing protein,were discovered.Nodulin-like domain-containing protein,and SAM domain-containing protein,were discovered.The PA for leafminer resistance selection was estimated using ten different SNP sets,including two GWAS-derived marker sets(three and 51 SNPs)and eight random marker sets(ranging from 51 to 10 K SNPs)analyzed by seven GP models.The findings emphasized the superior performance of GWAS-derived SNP sets,reaching a PA of up to 0.79 using the cBLUP model.Notably,this research marks the pioneering application of GP in the context of insect resistance,providing a significant advancement in the understanding and management of leafminer resistance in spinach cultivation.
文摘AIM:To investigate the potential causal associations between 41 inflammatory cytokines and myopia using a two-sample Mendelian randomization(MR)approach.METHODS:Publicly available genome-wide association study(GWAS)datasets were utilized for this two-sample MR analysis.Inflammatory cytokine-related GWAS data were extracted from The University of Bristol’s Research Data Repository,and myopia-related GWAS data were obtained from the FinnGen project.Single nucleotide polymorphisms(SNPs)associated with inflammatory cytokines were systematically selected as instrumental variables(IVs)based on three rigorous criteria:relevance,independence,and exclusion of pleiotropy.Five MR methods were employed for causal inference:the inverse-variance weighted(IVW)method as the primary analysis,supplemented by MREgger regression,weighted median estimator,simple mode,and weighted mode approaches.Sensitivity analyses were performed to evaluate the robustness of the causal estimates.RESULTS:A total of 773 myopia-associated SNPs were identified.MR analysis revealed that higher levels of macrophage inflammatory protein 1-α(MIP-1α)were associated with a 17%reduced risk of myopia[odds ratio(OR)=0.83;95%confidence interval(CI):0.69-0.99;P<0.05].In contrast,elevated levels of eotaxin(OR=1.26;95%CI:1.07-1.47;P<0.01),stromal cell-derived factor-1α(SDF-1α;OR=1.68;95%CI:1.08-2.62;P<0.05),and interleukin-2 receptor subunit alpha(IL-2Rα;OR=1.25;95%CI:1.01-1.53;P<0.05)were significantly associated with an increased risk of myopia.Sensitivity analyses confirmed the reliability of these results.CONCLUSION:This study provides evidence supporting a causal relationship between specific inflammatory cytokines and myopia.MIP-1αmay act as a protective factor against myopia,while eotaxin,SDF-1α,and IL-2Rαare potential risk factors for myopia.These findings emphasize the critical role of inflammatory pathways in the pathogenesis of myopia,offering novel insights for the development of preventive and therapeutic strategies for myopia.
文摘Background:Despite highly effective vaccines against SARS-CoV-2,COVID-19 vaccine hesitancy persisted in some populations in England during the pandemic,with rates and motivations for hesitancy varying by demographic group.Addressing the drivers of vaccine hesitancy through targeted interventions in hesitant groups is a public health priority for better and more rapid control of disease spread.We aimed to characterise the determinants and subtypes of vaccine hesitancy and identify more persistent forms of hesitancy via analysis of vaccine uptake in a large cross-sectional cohort with linked National Health Service(NHS)data.
基金financial support fromthe Chung Shan Medical University Hospital,Taiwan(CSH-2022-A-009).
文摘Background:To determine whether initiating a glucagon-like peptide-1 receptor agonist(GLP-1 RA)within 3 months of type 2 diabetes(T2DM)diagnosis alters the subsequent risk of overall and site-specific cancer and whether this association differs by baseline body-mass index(BMI).Methods:This retrospective cohort study used electronic health records from the TriNetX U.S.research network.Adults aged 20 years or older diagnosed with T2DM between 2016 and 2024 were included if they received any hypoglycemic agents within 3 months before and after diagnosis.Following 1:1 propensity score matching,both the GLP-1 RA user and non-user groups included 183,264 patients.The study outcome was defined as a diagnosis of malignant neoplasms.Hazard ratios(HRs)for overall and site-specific cancer risk were estimated using Cox proportional hazards models.Kaplan–Meier analysis and stratified analysis by BMI were performed.Results:Early GLP-1 RA use demonstrated a modest but significant association with reduced overall cancer risk(HR 0.93;95%CI:0.90–0.96).Reduced risks were noted for cancers of the digestive(HR 0.81),respiratory(HR 0.66),and female genital(HR 0.87)systems.In stratified analysis,benefits were more pronounced in patients with BMI≥30,particularly for pancreatic and colorectal cancers.Conclusion:Early initiation of GLP-1 receptor agonists in patients with diagnosed T2DM was associated with a modest reduction in overall cancer risk,particularly among individuals with obesity.These findings highlight the dual metabolic and oncologic value of prompt GLP-1 RA therapy.
文摘背景:近期研究表明,肠道菌群可能会影响肌萎缩侧索硬化症的发展进程,然而两者之间的因果关系尚不清楚。目的:利用孟德尔随机化方法探索肠道菌群与肌萎缩侧索硬化症之间的因果关系。方法:从IEU Open GWAS数据库(由英国布里斯托尔大学的英国医学研究委员会和遗传流行病学研究所开发,旨在提供与多种疾病相关的全基因组关联研究数据,为开放数据库)中分别获取肠道菌群和肌萎缩侧索硬化症的GWAS数据,以肠道菌群为暴露因素、肌萎缩侧索硬化症为结局变量,使用逆方差加权法、MR-Egger回归法、加权中位数法、加权模型法和简单模型法来探究两者之间的因果关系。使用敏感性分析检验孟德尔随机化结果的可靠性,使用反向孟德尔随机化分析进一步验证两者间的因果关系。结果与结论:(1)正向孟德尔随机化分析结果表明,6种肠道菌群与肌萎缩侧索硬化症之间存在因果关系,其中嗜胆菌属(β=0.206,OR=1.229)、毛螺菌属(β=0.288,OR=1.333)、马文-布莱恩特氏菌属(β=0.196,OR=1.216)、瘤胃球菌UCG010属(β=0.254,OR=1.289)和泰泽氏菌属3型(β=0.128,OR=1.136)可能是肌萎缩侧索硬化症的潜在危险因素,肠杆菌属(β=-0.203,OR=0.816)可能是肌萎缩侧索硬化症的保护因素;(2)在敏感性分析中,未发现显著的异质性和水平多效性(P均> 0.05),反向孟德尔随机化分析亦未揭示肠道菌群与肌萎缩侧索硬化症之间存在反向因果关系;(3)该研究结果不仅为肌萎缩侧索硬化症治疗提供了潜在的生物标志物,还为开发基于肠道菌群的新的干预治疗方案提供了理论依据,对中国基础医学研究具有一定的启示意义。
文摘籽粒百粒重是大豆产量构成三要素之一,百粒重大小决定大豆产量并影响其商品性,百粒重也是大豆遗传改良关键性状。为进一步挖掘籽粒大小相关基因,解析籽粒大小的调控机制。利用碳离子束(Carbon Ion Beam,CIB)辐射野生大豆(ZYD7068),构建了200份百粒重变异丰富的野生大豆突变群体。结果表明,群体籽粒百粒重在4.37~16.74 g之间,平均值为7.13 g,突变群体百粒重较野生大豆百粒重提高了4.98倍。对200个突变体采用全基因组测序,共获得184.1亿bp的测序数据,基因组覆盖率68.10%~70.96%。突变主要是单碱基突变(SNP),其中C到T突变占突变总数的40%。对候选SNP基因进行富集分析,突变基因主要富集在Go:0009626(植物超敏反应)、Go:0034050(共生体诱导宿主程序性细胞死亡)、Go:0012501(程序性细胞死亡)、Go:0043680(丝状器)以及Go:0045087(先天免疫反应)等途径。利用全基因组测序获得的SNPs标记,采用MLM模型,对突变群体籽粒百粒重进行全基因组关联分析(Genome-Wide Association GWAS),共检测到71个关联SNPs(-lgP>11),分别位于大豆2、3、5、6、9、10、14、16、18号染色体上,其中5、10号染色体和14号染色体以及18号染色体分别检测到9、21、9、23个SNPs,71个关联SNPs位点涉及33个基因。
文摘Wheat powdery mildew(Blumeria graminis f.sp.tritici, Bgt) is a disease of increasing importance globally due to the adoption of high yielding varieties and modern sustainable farming technologies.Growing resistant cultivars is a preferred approach to managing this disease, and novel powdery mildew resistance genes are urgently needed for new cultivar development.A genome-wide association study was performed on a panel of 1292 wheat landraces and historical cultivars using 5011 single nucleotide polymorphism(SNP)markers.The association panel was evaluated for reactions to three Bgt inoculants, OKS(14)-B-3-1, OKS(14)-C-2-1, and Bgt15.Linkage disequilibrum(LD) analysis indicated that genome-wide LD decayed to 0.1 at 23 Mb, and population structure analysis revealed seven subgroups in the panel.Association analysis using a mixed linear model(MLM) identified three loci for powdery mildew resistance on chromosome 2 B, designated QPm.stars-2BL1,QPm.stars-2BL2, and QPm.stars-2BL3.To evaluate the efficacy of GWAS in gene discovery,QPm.stars-2BL2 was validated using F2 and F2:3 populations derived from PI420646 × OK1059060-126135-3.Linkage analysis delimited the powdery mildew resistance gene in PI 420646 to an interval where QPm.stars-2BL2 was located, lending credence to the GWAS results.QPm.stars-2BL1 and QPm.stars-2BL3, which were associated with four SNPs located at 457.7–461.7 Mb and two SNPs located at 696.6–715.9 Mb in the Chinese Spring reference IWGSC RefSeq v1.0, respectively, are likely novel loci for powdery mildew resistance and can be used in wheat breeding to improve powdery mildew resistance.
基金supported by the National Natural Science Foundation of China (Nos. 31371275 and 30971635)the National Basic Research Program of China (973 Program) (No. 2011CB504004)self-determined research funds of CCNU from the colleges’ basic research and operation of MOE (No. CCNU14Z01003)
文摘Genome-wide association studies （GWASs） have identified thousands of genes and genetic variants （mainly SNPs） that contribute to complex diseases in humans. Functional characterization and mechanistic elucidation of these SNPs and genes action are the next major challenge. It has been well established that SNPs altering the amino acids of protein-coding genes can drastically impact protein function, and play an important role in molecular pathogenesis. Functions of regulatory SNPs can be complex and elusive, and involve gene expression regulation through the effect on RNA splicing, transcription factor binding, DNA metbylation and miRNA recruitment. In the present review, we summarize the recent progress in our understanding of functional consequences of GWAS-associated non-coding regulatory SNPs, and discuss the application of systems genetics and network biology in the interpretation of GWAS findings.
