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Dynamic metabolite QTL analyses provide novel biochemical insights into kernel development and nutritional quality improvement in common wheat

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Plant Communications 2024年第5期5卷 42-56页

作者： Bo Yin Jingqi Jia Xu Sun Xin Hu Min Ao Wei Liu Zhitao Tian Hongbo Liu Dongqin Li Wenfei Tian Yuanfeng Hao Xianchun Xia Nir Sade Yariv Brotman Alisdair RFernie Jie Chen Zhonghu He Wei Chen National Key Laboratory of Crop genetic Improvement and National Center of Plant Gene Research(Wuhan) Huazhong Agricultural UniversityWuhan 430070China Hubei Hongshan Laboratory Wuhan 430070China National Wheat Improvement Center Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijingChina School of Plant Sciences and Food Security The Institute for Cereal Crops ImprovementTel Aviv UniversityTel Aviv 69978Israel Max Planck Institute of molecular Plant Physiology 14476 Potsdam-GolmGermany Yazhouwan National Laboratory Sanya 572025China

Despite recent advances in crop metabolomics,the genetic control and molecular basis of the wheat kernel metabolome at different developmental stages remain largely ***,we performed widely tar-geted metabolite profiling of kernels from three developmental stages(grain-filling kernels[FKs],mature kernels[MKs],and germinating kernels[GKs])using a population of 159 recombinant inbred *** de-tected 625 annotated metabolites and mapped 3173,3143,and 2644 metabolite quantitative trait loci(mQTLs)in FKs,MKs,and GKs,*** 52 mQTLs were mapped at all three stages,indicating the high stage specificity of the wheat kernel *** candidate genes were functionally vali-dated by in vitro enzymatic reactions and/or transgenic approaches in wheat,three of which mediated the tricin metabolic ***ﬂux efficiencies within the tricin pathway were evaluated,and su-perior candidate haplotypes were identified,comprehensively delineating the tricin metabolism pathway in ***,additional wheat metabolic pathways were re-constructed by updating them to incorporate the 177 candidate genes identified in this *** work provides new information on variations in the wheat kernel metabolome and important molecular resources for improvement of wheat nutritional quality.

关键词： mQTL wheat kernel development gene validation nutritional quality wheat

Transcriptome-Wide Identification and Functional Analysis of PgSQE08-01 Gene in Ginsenoside Biosynthesis in Panax ginseng ***.

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Phyton-International Journal of Experimental Botany 2024年第2期93卷 313-327页

作者： Lei Zhu Lihe Hou Yu Zhang Yang Jiang Yi Wang Meiping Zhang Mingzhu Zhao Kangyu Wang College of Life Science Jilin Agricultural UniversityChangchun130118China Jilin Engineering Research Center Ginseng genetic Resources Development and Utilization Changchun130118China Jilin Academy of Vegetable and Flower Sciences Changchun130033China

Panax ginseng *** an important plant species used in traditional Chinese medicine,whose primary active ingredient is a *** biosynthesis is not only regulated by transcription factors but also controlled by a variety of structural ***,the molecular mechanism underlying ginsenoside biosynthesis has always been a topic in the discussion of ginseng secondary *** epoxidase(SQE)is a key enzyme in the mevalonic acid pathway,which affects the biosynthesis of secondary metabolites such as *** ginseng transcriptome,expression,and ginsenoside content databases,this study employed bioinformatic methods to systematically analyze the genes encoding SQE in *** first selected six PgSQE candidates that were closely involved in ginsenoside biosynthesis and then identified PgSQE08-01 to be highly associated with ginsenoside ***,we constructed the overexpression vector pCAMBIA3301-PgSQE08-01 and the RNAi vector pART27-PgSQE08-01 and transformed ginseng adventitious roots using Agrobacterium rhizogenes,to obtain positive hairy-root ***,quantitative reverse transcriptionpolymerase chain reaction and high-performance liquid chromatography were used to determine the expression of relevant genes and ginsenoside content,***,we focused on the function of PgSQE08-01 gene,which was noted to be involved in ginsenoside ***,these findings not only provided a molecular basis for the identification of important functional genes in ginseng but also enriched genetic resources for the biosynthesis of ginsenosides using synthetic biology.

关键词： Panax ginseng pgSQE08-01 gene squalene epoxidase ginsenoside ginseng hairy roots

Decoding bovine coronavirus immune targets:an epitope informatics approach

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Animal Diseases 2024年第2期4卷 138-153页

作者： Swati Rani Mehnaj Khatoon Jagadish Hiremath Kuralayanapalya Puttahonnappa Suresh Jayashree Anandakumar Nagendra Nath Barman Sheethal Manjunath Yamini Sri S Sharanagouda S.Patil Spatial epidemiology Lab ICAR-National Institute of Veterinary Epidemiology and Disease InformaticsYelahankaBengaluruKarnataka 560064India College of Veterinary Science Assam Agricultural UniversityGuwahatiAssam 785013India Yuvaraja’s College Mysuru University of MysuruMysuruKarnataka 570005India

Bovine coronavirus(BCoV)poses a significant threat to the global cattle industry,causing both respiratory and gastrointestinal infections in cattle *** necessitates the development of efficacious *** several inactivated and live BCoV vaccines exist,they are predominantly limited to *** immunization of adult cattle is imperative for BCoV infection control,as it curtails viral transmission to calves and ameliorates the impact of enteric and respiratory ailments across all age groups within the *** study presents an in silico methodology for devising a multiepitope vaccine targeting *** spike glycoprotein(S)and nucleocapsid(N)proteins,which are integral elements of the BCoV structure,play pivotal roles in the viral infection cycle and immune *** constructed a remarkably effective multiepitope vaccine candidate specifically designed to combat the BCoV *** immunoinformatics technology,B-cell and T-cell epitopes were predicted and linked together using linkers and adjuvants to efficiently trigger both cellular and humoral immune responses in *** in silico construct was characterized,and assessment of its physicochemical properties revealed the formation of a stable vaccine *** 3D modeling of the vaccine construct,molecular docking revealed a stable interaction with the bovine receptor ***,the viability of the vaccine’s high expression and simple purification was demonstrated by codon optimization and in silico cloning expression into the pET28a(+)*** applying immunoinformatics approaches,researchers aim to better understand the immune response to bovine coronavirus,discover potential targets for intervention,and facilitate the development of diagnostic tools and vaccines to mitigate the impact of this virus on cattle health and the livestock *** anticipate that the design will be useful as a preventive treatment for BCoV sickness in cattle,opening the door for furthe

关键词： Immunoinformatics Bovine coronavirus Multiepitope vaccine molecular docking In silico cloning

Obituary:*** Zhang(1963-2023)-A scientist focused on toxins and their underlying mechanisms to decipher human diseases

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Zoological Research 2024年第1期45卷 230-232页

作者： Wenhui Lee Ren Lai the Key Laboratory of Bioactive Peptides of Yunnan Province Engineering Laboratory of Peptides of Chinese Academy of SciencesKIZ-CUHK Joint Laboratory of Bioresources and Molecular Research in Common DiseasesNational Resource Centre for Non-Human PrimatesKunming Primate Research CentreNational Research Facility for Phenotypic&Genetic Analysis of Model Animals(Primate Facility)Sino-African Joint Research CentreNew Cornerstone Science InstituteKunming Institute of ZoologyChinese Academy of SciencesKunmingYunnan 650107China

*** Zhang was born on 9 July 1963 in Kunming,Yunnan,China,during a tumultuous period which he often *** his life,he harbored a steadfast belief in using knowledge to unravel the mysteries of human *** educational journey was marked by frequent changes in schools due to his parents’occupational ***,despite these challenges,he consistently displayed diligence and was admitted to the East China University of Science and Technology,Shanghai,after completing high school in *** remained an active and loyal member of the School of Biotechnology at the university.

关键词： admitted harbor mechanisms

Long non-coding RNA FPFSC promotes immature porcine Sertoli cell growth through modulating the miR-326/EHMT2 axis

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Journal of Integrative Agriculture 2024年第11期23卷 3830-3842页

作者： Dan Chu Bin Chen Bo Weng Saina Yan Yanfei Yin Xiangwei Tang Maoliang Ran Hunan Provincial Key Laboratory for genetic Improvement of Domestic Animal College of Animal Science and Technology Hunan Agricultural University Xiangxi Vocational and Technical College for Nationalities

Sertoli cells are indispensable for guaranteeing normal spermatogenesis and male fertility. Although a huge number of long non-coding RNAs(lncRNAs) are identified from developing porcine testicular tissues and have been predicted with crucial regulatory roles in spermatogenesis, their functions and regulatory mechanisms are still in infancy. Herein, we mainly explored the regulatory and functional roles of lncFPFSC in proliferation and apoptosis of immature porcine Sertoli cells. The results demonstrated that lncFPFSC was predominantly located in the cytoplasm of immature porcine Sertoli cells. lncFPFSC overexpression promoted cell cycle progression and cell proliferation,as well as inhibited cell apoptosis, whereas siRNA-induced lncFPFSC knockdown resulted in the opposite ***, lncFPFSC acted as a sponge for miR-326. Overexpression of miR-326 inhibited cell proliferation and induced cell apoptosis, which further abolished the effects of lncFPFSC overexpression. The euchromatic histone-lysine N-methyltransferase 2(EHMT2) gene was directly targeted by miR-326, and its mRNA and protein expressions were both negatively regulated by miR-326 in immature porcine Sertoli cells. Then, siRNA-induced EHMT2 knockdown resulted a similar effect of miR-326 inhibition. Collectively, lncFPFSC promoted proliferation and inhibited apoptosis in immature porcine Sertoli cells through modulating the miR-326/EHMT2 axis. This study expanded our understanding of non-coding RNAs in participating porcine spermatogenesis through deciding the fate of Sertoli cells, and the competing endogenous RNA(ceRNA) network, and provided new molecular markers to treat Sertoli cell disorder inducing male infertility.

关键词： porcine Sertoli cells proliferation apoptosis lncRNA FPFSC miR-326 EHMT2 gene

PCR-HRM for Genomic Surveillance of SARS-CoV-2: A Variant Detection Tool in Côte d’Ivoire, West Africa

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American Journal of molecular Biology 2024年第3期14卷 166-185页

作者： Aboubacar Sylla Solange Kakou-Ngazoa Tata Gniré Safiatou Coulibaly Yakoura Karidja Ouattara Mireille Sylvie Kouamé-Sina Zeinab Ouattara David Ngolo Coulibaly Brice Kouakou Bla Mireille Dosso molecular Biology Platform Pasteur Institute Cte dIvoire Abidjan Cte dIvoire Laboratory of Biology and Health UFR Biosciences University Flix Houphout Boigny Abidjan Cte dIvoire genetic and Cancer Laboratory Molecular Genetics Platform Pasteur Institute Cte dIvoire Abidjan Cte dIvoire Epidemic Virus Department Pasteur Institute Cte dIvoire Abidjan Cte dIvoire

The rise of new viruses, like SARS-CoV-2 causing the COVID-19 outbreak, along with the return of antibiotic resistance in harmful bacteria, demands a swift and efficient reaction to safeguard the health and welfare of the global population. It is crucial to have effective measures for prevention, intervention, and monitoring in place to address these evolving and recurring risks, ensuring public health and international security. In countries with limited resources, utilizing recombinant mutation plasmid technology in conjunction with PCR-HRM could help differentiate the existence of novel variants. cDNA synthesis was carried out on 8 nasopharyngeal samples following viral RNA extraction. The P1 segment of the SARS-CoV-2 Spike S protein was amplified via conventional PCR. Subsequently, PCR products were ligated with the pGEM-T Easy vector to generate eight recombinant SARS-CoV-2 plasmids. Clones containing mutations were sequenced using Sanger sequencing and analyzed through PCR-HRM. The P1 segment of the S gene from SARS-CoV-2 was successfully amplified, resulting in 8 recombinant plasmids generated from the 231 bp fragment. PCR-HRM analysis of these recombinant plasmids differentiated three variations within the SARS-CoV-2 plasmid population, each displaying distinct melting temperatures. Sanger sequencing identified mutations A112C, G113T, A114G, G214T, and G216C on the P1 segment, validating the PCR-HRM findings of the variations. These mutations led to the detection of L452R or L452M and F486V protein mutations within the protein sequence of the Omicron variant of SARS-CoV-2. In summary, PCR-HRM is a vital and affordable tool for distinguishing SARS-CoV-2 variants utilizing recombinant plasmids as controls.

关键词： Genomic Surveillance SARS-CoV-2 PCR-HRM Variants Côte d’Ivoire

Inhibition of Ehrlich ascites carcinoma growth by melatonin:Studies with micro-CT

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Oncology Research 2024年第1期32卷 175-185页

作者： SEHER YILMAZ ZÜLEYHA DOĞANYIĞIT MERT OCAK EVRIM SUNA ARIKAN SÖYLEMEZ ASLI OKAN OFLAMAZ SÜMEYYE UÇAR ŞÜKRÜATEŞ AMMAD AHMAD FAROOQI Department of Anatomy Faculty of MedicineYozgat Bozok UniversityYozgatTurkey Department of Mechanical and Aerospace Engineering Case Western Reserve UniversityClevelandOhioUSA Department of Histology and Embriology Faculty of MedicineYozgat Bozok UniversityYozgatTurkey Department of Anatomy Faculty of DentistryAnkara UniversityAnkaraTurkey Department of Medical Biology Faculty of MedicineAfyonkarahisar Health Sciences UniversityAfyonTurkey Department of Anatomy Faculty of MedicineErciyes UniversityKayseriTurkey Department of molecular Oncology Institute of Biomedical and Genetic Engineering(IBGE)IslamabadPakistan

Melatonin is a versatile indolamine synthesized and secreted by the pineal gland in response to the photoperiodic information received by the retinohypothalamic signaling *** has many benefits,such as organizing circadian rhythms and acting as a powerful *** aimed to show the antitumor effects of melatonin in both in vivo and in vitro models through the mammalian target of rapamycin(mTOR)signaling pathway and the Argyrophilic Nucleolar Regulatory Region(AgNOR),using the Microcomputed Tomography(Micro CT).Ehrlich ascites carcinoma(EAC)cells were administered into the mice by subcutaneous *** with solid tumors were injected intraperitoneally with 50 and 100 mg/kg melatonin for 14 *** measurements for the taken tumors were made with micro-CT imaging,immunohistochemistry(IHC),real-time polymerase chain reaction(PCR)and ***,the tumor tissue volume in the Tumor+100 mg/kg melatonin group was significantly lower than that in the other groups in the data obtained from micro-CT *** the IHC analysis,the groups treated with Tumor+100 mg/kg melatonin were compared when the mTOR signaling pathway and factor 8(F8)expression were compared with the control *** was determined that there was a significant decrease(p<0.05).Significant differences were found in the total AgNOR area/nuclear area(TAA/NA)ratio in the treatment groups(p<0.05).Furthermore,there were significant differences between the amount of mTOR mRNA for the phosphatidylinositol 3-kinase(PI3K),AKT Serine/Threonine Kinase(PKB/AKT)genes(p<0.05).Cell apoptosis was evaluated with Annexin V in an in vitro study with different doses of melatonin;It was observed that 100µg/mL melatonin dose caused an increase in the apoptotic cell *** this study,we have reported anti-tumor effects of melatonin in cell culture studies as well as in mice *** characterization of the melatonin-mediated cancer inhibitory effects will be valuable in advanc

关键词： Signaling pathway Apoptosis Real-time PCR AgNOR

genetic Variations and Nonalcoholic Fatty Liver Disease:Field Synopsis,Systematic Meta-Analysis,and Epidemiological Evidence

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Biomedical and Environmental Sciences 2024年第7期37卷 762-773页

作者： Yamei Li Xiang Xiao Jie Wang Yixu Liu Xiongfeng Pan Haibin Yu Jiayou Luo Miyang Luo Department of epidemiology and Health Statistics School of Public HealthUniversity of South ChinaHengyang 421001HunanChina Department of Maternal and Child Health Xiangya School of Public HealthCentral South UniversityChangsha 410008HunanChina Supervision and Inspection Department of Shanghai Healthcare Security Bureau Shanghai 200003China Department of epidemiology and Health Statistics Xiangya School of Public HealthCentral South UniversityChangsha 410008HunanChina

Objective To systematically summarize the published literature on the genetic variants associated with nonalcoholic fatty liver disease(NAFLD).Methods Literature from Web of Science,PubMed,and Embase between January 1980 and September 2022 was systematically ***-analyses of the genetic variants were conducted using at least five data *** epidemiologic credibility of the significant associations was graded using the Venice *** Based on literature screening,399 eligible studies were included,comprising 381 candidate gene association,16 genome-wide association,and 2 whole-exome sequencing *** identified 465 genetic variants in 173 genes in candidate gene association studies,and 25 genetic variants in 17 genes were included in the *** meta-analysis identified 11 variants in 10 genes that were significantly associated with NAFLD,with cumulative epidemiological evidence of an association graded as strong for two variants in two genes(HFE,TNF),moderate for four variants in three genes(TM6SF2,GCKR,and ADIPOQ),and weak for five variants in five genes(MBOAT7,PEMT,PNPLA3,LEPR,and MTHFR).Conclusion This study identified six variants in five genes that had moderate to strong evidence of an association with NAFLD,which may help understand the genetic architecture of NAFLD risk.

关键词： Nonalcoholic fatty liver disease genetic association study genetic variant Systematic review Meta-analysis

Dysregulated N6-methyladenosine modification in peripheral immune cells contributes to the pathogenesis of amyotrophic lateral sclerosis

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Frontiers of Medicine 2024年第2期18卷 285-302页

作者： Di He Xunzhe Yang Liyang Liu Dongchao Shen Qing Liu Mingsheng Liu Xue Zhang Liying Cui Department of Neurology Peking Union Medical College Hospital(PUMCH)Chinese Academy of Medical Sciences and Peking Union Medical CollegeBeijing100730China Medical Doctor Program Chinese Academy of Medical Science and Peking Union Medical CollegeBeijing100730China McKusick-Zhang Center for genetic Medicine State Key Laboratory of Medical Molecular BiologyInstitute of Basic Medical Sciences Chinese Academy of Medical SciencesSchool of Basic MedicinePeking Union Medical CollegeBeijing100730China Neuroscience Center Chinese Academy of Medical Sciences and Peking Union Medical CollegeBeijing100730China

Amyotrophic lateral sclerosis(ALS)is a progressive neurogenerative disorder with uncertain *** evidence implicates N6-methyladenosine(m6A)modification in ALS *** RNA immunoprecipitation sequencing(MeRIP-seq)and liquid chromatography–mass spectrometry were utilized for m6A profiling in peripheral immune cells and serum proteome analysis,respectively,in patients with ALS(n=16)and controls(n=6).The single-cell transcriptomic dataset(GSE174332)of primary motor cortex was further analyzed to illuminate the biological implications of differentially methylated genes and cell communication *** of peripheral immune cells revealed extensive RNA hypermethylation,highlighting candidate genes with differential m6A modification and expression,including C-X3-C motif chemokine receptor 1(CX3CR1).In RAW264.7 macrophages,disrupted CX3CR1 signaling affected chemotaxis,potentially influencing immune cell migration in *** proteome analysis demonstrated the role of dysregulated immune cell migration in *** type-specific expression variations of these genes in the central nervous system(CNS),particularly microglia,were *** communication between neurons and glial cells was selectively altered in ALS *** integrated approach underscores m6A dysregulation in immune cells as a potential ALS contributor.

关键词： amyotrophic lateral sclerosis N^(6)-methyladenosine epi-transcriptome proteome single cell RNA sequencing analysis CX3CR1