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The genome-wide meiotic recombination landscape in ciliates and its implications for crossover regulation and genome evolution

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Journal of genetics and Genomics 2024年第3期51卷 302-312页

作者： Lu Fu Chen Gu Kazufumi Mochizuki Jie Xiong Wei Miao Guangying Wang Key Laboratory of Aquatic Biodiversity and Conservation Institute of HydrobiologyChinese Academy of SciencesWuhanHubei 430072China University of Chinese Academy of Sciences Beijing 100049China Institute of Human genetics(IGH) CNRSUniversity of Montpellier34396 MontpellierFrance Key Laboratory of breeding Biotechnology and Sustainable Aquaculture Chinese Academy of SciencesWuhanHubei 430072China Key Laboratory of Lake and Watershed Science for Water Security Chinese Academy of SciencesNanjingJiangsu 210008China

Meiotic recombination is essential for sexual reproduction and its regulation has been extensively studied in many ***,genome-wide recombination landscape has not been reported in ciliates and it remains unknown how it is affected by the unique features of ciliates:the synaptonemal complex(SC)-independent meiosis and the nuclear ***,we show the recombination landscape in the model ciliate Tetrahymena thermophila by analyzing single-nucleotide polymorphism datasets from 38 hybrid *** detect 1021 crossover(CO)events(35.8 per meiosis),corresponding to an overall CO rate of 9.9 cM/***,gene conversion by non-crossover is rare(1.03 per meiosis)and not biased towards G or C *** with the reported roles of SC in CO interference,we find no obvious sign of CO *** tends to occur within germ-soma common genomic regions and many of the 44 identified CO hotspots localize at the centromeric or subtelomeric *** ontology analyses show that CO hotspots are strongly associated with genes responding to environmental *** discuss these results with respect to how nuclear dimorphism has potentially driven the formation of the observed recombination landscape to facilitate environmental adaptation and the sharing of machinery among meiotic and somatic recombination.

关键词： Meiotic recombination Hotspot Crossover interference Adaptive evolution

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Resident immune responses to spinal cord injury:role of astrocytes and microglia

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Neural Regeneration Research 2024年第8期19卷 1678-1685页

作者： Sydney Brockie Cindy Zhou Michael G.Fehlings Division of genetics and Development Krembil Research InstituteUniversity Health NetworkTorontoONCanada Institute of Medical Science University of TorontoTorontoONCanada Division of Neurosurgery and Spine Program Department of SurgeryUniversity of TorontoTorontoONCanada

Spinal cord injury can be traumatic or non-traumatic in origin,with the latter rising in incidence and prevalence with the aging demographics of our *** r,as the global population ages,individuals with co-existent degenerative spinal pathology comprise a growing number of traumatic spinal cord injury cases,especially involving the cervical spinal *** makes recovery and treatment approaches particula rly challenging as age and comorbidities may limit regenerative *** these reasons,it is critical to better understand the complex milieu of spinal cord injury lesion pathobiology and the ensuing inflammatory *** review discusses microglia-specific purinergic and cytokine signaling pathways,as well as microglial modulation of synaptic stability and plasticity after ***,we evaluate the role of astrocytes in neurotransmission and calcium signaling,as well as their border-forming response to neural *** the inflammatory and reparative roles of these cells have eluded our complete understanding and remain key therapeutic targets due to their extensive structural and functional roles in the nervous *** advances have shed light on the roles of glia in neurotransmission and reparative injury responses that will change how interventions are *** key processes and existing knowledge gaps will allow future research to effectively target these cells and harness their regenerative potential.

关键词： astrocytes glial signaling microglia spinal cord injury synaptic transmission

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Genes controlling grain chalkiness in rice

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The Crop Journal 2024年第4期12卷 979-991页

作者： Luo Chen Xiumei Li Minhua Zheng Rui Hu Jingfang Dong Lingyan Zhou Wuge Liu Dilin Liu Wu Yang Rice Research Institute Guangdong Academy of Agricultural SciencesGuangdong Key Laboratory of New Technology in Rice BreedingGuangdong Rice Engineering LaboratoryKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China(Co-construction by Ministry and Province)Ministry of Agriculture and Rural AffairsGuangzhou 510640GuangdongChina College of Agriculture and Biology Zhongkai University of Agriculture and EngineeringGuangzhou 510225GuangdongChina Guangdong Provincial Key Laboratory for Crop Germplasm Resources Preservation and Utilization Agro-biological Gene Research CenterGuangdong Academy of Agricultural SciencesGuangzhou 510640GuangdongChina

With rising living standards,there is an increasing demand for high-quality *** quality is mainly defined by milling quality,appearance quality,cooking and eating quality,and nutrition *** them,chalkiness is a key trait for appearance quality,which adversely affects cooking and eating quality,head rice yield,and commercial ***,chalkiness is undesirable,and reducing chalkiness is a major goal in rice quality ***,chalkiness is a complex trait jointly influenced by genetic and environmental factors,making its genetic study and precision improvement a huge *** the rapid development of molecular techniques,much knowledge has been gained about the genes and molecular networks involved in chalkiness *** present review describes the major environmental factors affecting chalkiness and summarizes the quantitative trait loci(QTL)associated with *** than 150 genes related to chalkiness formation have been *** functions of the genes regulating chalkiness,primarily those involved in starch synthesis,storage protein synthesis,transcription regulation,organelle development,grain shape regulation,and hightemperature response,are ***,we identify the challenges associated with genetic improvement of chalkiness and suggest potential ***,the review offers insight into the molecular dynamics of chalkiness and provides a strong basis for the future breeding of high-quality rice varieties.

关键词： Rice Grain quality Chalkiness QTL identification Gene

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Genomic selection of eight fruit traits in pear

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Horticultural Plant Journal 2024年第2期10卷 318-326页

作者： Manyi Sun Mingyue Zhang Satish Kumar Mengfan Qin Yueyuan Liu Runze Wang Kaijie Qi Shaoling Zhang Wenjing Chang Jiaming Li Jun Wu College of Horticulture State Key Laboratory of Crop Genetics&Germplasm Enhancement and UtilizationNanjing Agricultural UniversityNanjingJiangsu 210095China State Key Laboratory of Crop Biology College of Horticulture Science and EngineeringShandong Agricultural UniversityTai'anShandong 271018China The New Zealand Institute for Plant and Food Research Limited Private Bag 1401Havelock North 4157New Zealand Zhongshan Biological breeding Laboratory NanjingJiangsu 210014China

Genomic selection (GS) has the potential to improve selection efficiency and shorten the breeding cycle in fruit tree breeding. In this study,we evaluated the effect of prediction methods, marker density and the training population (TP) size on pear GS for improving its performance and reducing cost. We evaluated GS under two scenarios:(1) five-fold cross-validation in an interspecific pear family;(2) independent validation. Based on the cross-validation scheme, the prediction accuracy (PA) of eight fruit traits varied between 0.33 (fruit core vertical diameter)and 0.65 (stone cell content). Except for single fruit weight, a slightly better prediction accuracy (PA) was observed for the five parametrical methods compared with the two non-parametrical methods. In our TP of 310 individuals, 2 000 single nucleotide polymorphism (SNP) markers were sufficient to make reasonably accurate predictions. PAs for different traits increased by 18.21%-46.98%when the TP size increased from 50to 100, but the increment was smaller (-4.13%-33.91%) when the TP size increased from 200 to 250. For independent validation, the PAs ranged from 0.11 to 0.45 using rrBLUP method. In summary, our results showed that the TP size and SNP numbers had a greater impact on the PA than prediction methods. Furthermore, relatedness among the training and validation sets, and the complexity of traits should be considered when designing a TP to predict the test panel.

关键词： Pear Pyrus Prediction method TP size SNP marker number

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Gut microbiota-dependent phenylacetylglutamine in cardiovascular disease:current knowledge and new insights

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Frontiers of Medicine 2024年第1期18卷 31-45页

作者： Yaonan Song Haoran Wei Zhitong Zhou Huiqing Wang Weijian Hang Junfang Wu Dao Wen Wang Division of Cardiology Department of Internal MedicineTongji HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan430030China Hubei Key Laboratory of genetics and Molecular Mechanisms of Cardiological Disorders Wuhan430030China

Phenylacetylglutamine(PAGln)is an amino acid derivate that comes from the amino acid *** are increasing studies showing that the level of PAGln is associated with the risk of different cardiovascular *** this review,we discussed the metabolic pathway of PAGln production and the quantitative measurement methods of *** summarized the epidemiological evidence to show the role of PAGln in diagnostic and prognostic value in several cardiovascular diseases,such as heart failure,coronary heart disease/atherosclerosis,and cardiac *** underlying mechanism of PAGln is now considered to be related to the thrombotic potential of platelets via adrenergic ***,other possible mechanisms such as inflammatory response and oxidative stress could also be induced by ***,since PAGln is produced across different organs including the intestine,liver,and kidney,the cross-talk among multiple organs focused on the function of this uremic toxic ***,the prognostic value of PAGln compared to the classical biomarker was discussed and we also highlighted important gaps in knowledge and areas requiring future investigation of PAGln in cardiovascular diseases.

关键词： PAGln cardiovascular disease gut microbiota uremic metabolite biomarker

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A dual-RPA based lateral flow strip for sensitive,on-site detection of CP4-EPSPS and Cry1Ab/Ac genes in genetically modified crops

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Food Science and Human Wellness 2024年第1期13卷 183-190页

作者： Jinbin Wang Yu Wang Xiuwen Hu Yifan Chen Wei Jiang Xiaofeng Liu Juan Liu Lemei Zhu Haijuan Zeng Hua Liu Key Laboratory of Agricultural genetics and breeding Institute of Biotechnology ResearchShanghai Academy of Agricultural SciencesShanghai 201106China Crops Ecological Environment Security Inspection and Supervision Center(Shanghai) Ministry of Agriculture and Rural AffairsShanghai 201106China School of Life Science and Engineering Lanzhou University of TechnologyLanzhou 730050China School of Public Health Changsha Medical UniversityChangsha 410219China Academician Workstation Changsha Medical UniversityChangsha 410219China

Traditional transgenic detection methods require high test conditions and struggle to be both sensitive and *** this study,a one-tube dual recombinase polymerase amplification(RPA)reaction system for CP4-EPSPS and Cry1Ab/Ac was proposed and combined with a lateral flow immunochromatographic assay,named“Dual-RPA-LFD”,to visualize the dual detection of genetically modified(GM)*** which,the herbicide tolerance gene CP4-EPSPS and the insect resistance gene Cry1Ab/Ac were selected as targets taking into account the current status of the most widespread application of insect resistance and herbicide tolerance traits and their stacked *** diluted plasmids,transgenic standards,and actual samples were used as templates to conduct sensitivity,specificity,and practicality assays,*** constructed method achieved the visual detection of plasmid at levels as low as 100 copies,demonstrating its high *** addition,good applicability to transgenic samples was observed,with no cross-interference between two test lines and no influence from other *** conclusion,this strategy achieved the expected purpose of simultaneous detection of the two popular targets in GM crops within 20 min at 37°C in a rapid,equipmentfree field manner,providing a new alternative for rapid screening for transgenic assays in the field.

关键词： Genetically modifi ed crops On-site detection Lateral fl ow test strips Dual recombinase polymerase amplification (RPA)

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CNV analysis of Meishan pig by nextgeneration sequencing and effects of AHR gene CNV on pig reproductive traits

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Journal of animal Science and Biotechnology 2020年第3期11卷 667-677页

作者： Xianrui Zheng Pengju Zhao Kaijie Yang Chao Ning Haifei Wang Lei Zhou Jianfeng Liu National Engineering Laboratory for animal breeding Key Laboratory of Animal GeneticsBreeding and ReproductionMinistry of AgricultureCollege of Animal Science and TechnologyChina Agricultural UniversityBeijing 100193China department of animal genetics Breeding and Reproduction and Molecular DesignCollege of Animal Science and TechnologyYangzhou UniversityYangzhou 225009China.

Background:Reproductive performance of livestock is an economically important aspect of global food *** Chinese Meishan pig is a prolific breed,with an average of three to five more piglets per litter than European breeds;however,the genetic basis for this difference is not well ***:In this study,we investigated copy number variations(CNVs)of 32 Meishan pigs and 29 Duroc pigs by nextgeneration sequencing.A genome-wide analysis of 61 pigs revealed 12,668 copy number variable regions(CNVRs)that were further divided into three categories based on copy number(CN)of the whole population,i.e.,gain(n=7,638),and loss(n=5,030)*** then compared Meishan and Duroc pigs and identified 17.17Mb of 6,387 CNVRs that only existing in Meishan pigs CNVRs that overlapped the reproduction-related gene encoding the aryl hydrocarbon receptor(AHR)*** found that normal AHR CN was more frequent than CN loss in four different pig *** association analysis showed that AHR CN had a positive effect on litter size(Pbreeding programs.

关键词： AHR Copy number variation Meishan Next-generation sequencing Pig Reproduction

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lncRNA ZNF593-AS inhibits cardiac hypertrophy and myocardial remodeling by upregulating Mfn2 expression

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Frontiers of Medicine 2024年第3期18卷 484-498页

作者： Xiang Nie Jiahui Fan Yanwen Wang Rong Xie Chen Chen Huaping Li Dao Wen Wang Division of Cardiology Department of Internal MedicineTongji HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan430030China Hubei Key Laboratory of genetics and Molecular Mechanisms of Cardiological Disorders Wuhan430030China

lncRNA ZNF593 antisense(ZNF593-AS)transcripts have been implicated in heart failure through the regulation of myocardial *** decreased transcriptional activity of ZNF593-AS has also been detected in cardiac ***,the function of ZNF593-AS in cardiac hypertrophy remains ***,we report that the expression of ZNF593-AS reduced in a mouse model of left ventricular hypertrophy and cardiomyocytes in response to treatment with the hypertrophic agonist phenylephrine(PE).In vivo,ZNF593-AS aggravated pressure overload–induced cardiac hypertrophy in knockout *** contrast,cardiomyocyte-specific transgenic mice(ZNF593-AS MHC-Tg)exhibited attenuated TAC-induced cardiac *** vitro,vector-based overexpression using murine or human ZNF593-AS alleviated PE-induced myocyte hypertrophy,whereas GapmeR-induced inhibition aggravated hypertrophic *** using RNA-seq and gene set enrichment analyses,we identified a link between ZNF593-AS and oxidative phosphorylation and found that mitofusin 2(Mfn2)is a direct target of ***593-AS exerts an antihypertrophic effect by upregulating Mfn2 expression and improving mitochondrial ***,it represents a promising therapeutic target for combating pathological cardiac remodeling.

关键词： lncRNA ZNF593-AS cardiac hypertrophy Mfn2 oxidative phosphorylation

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Current Advances in Epigenetic Modification and Alteration during Mammalian Ovarian Folliculogenesis

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Journal of genetics and Genomics 2012年第3期39卷 111-123页

作者： Zengxiang Pan Jinbi Zhang Qifa Li Yinxia Li Fangxiong Shi Zhuang Xie Honglin Liu department of animal genetics Breeding and ReproductionCollege of Animal Science and TechnologyNanjing Agricultural UniversityNanjing 210095China

During the growth and development of mammalian ovarian follicles, the activation and deactivation of mass genes are under the synergistic control of diverse modifiers through genetic and epigenetic events. Many factors regulate gene activity and functions through epigenetic modification without altering the DNA sequence, and the common mechanisms may include but are not limited to： DNA methylation, histone modifications （e.g., acetylation, deacetylation, phosphorylation, methylation, and ubiquitination）, and RNA- associated silencing of gene expression by noncoding RNA. Over the past decade, substantial progress has been achieved in studies involving the epigenetic alterations during mammalian germ cell development. A number of candidate regulatory factors have been identified. This review focuses on the current available information of epigenetic alterations （e.g., DNA methylation, histone modification, noncoding-RNA-mediated regulation） during mammalian folliculogenesis and recounts when and how epigenetic patterns are differentially established, maintained, or altered in this process. Based on different types of epigenetic regulation, our review follows the temporal progression of events during ovarian folliculogenesis and describes the epigenetic changes and their contributions to germ cell-specific functions at each stage （i.e,, primordial folliculogenesis （follicle formation）, follicle maturation, and follicular atresia）.

关键词： Epigenetics DNA methylation Histone modification Noncoding RNAs Ovary Folliculogenesis

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Promising dawn in tumor microenvironment therapy:engineering oral bacteria

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International Journal of Oral Science 2024年第2期16卷 208-224页

作者： Zifei Wang Wansu Sun Ruixue Hua Yuanyin Wang Yang Li Hengguo Zhang Key Laboratory of Oral Diseases Research of Anhui Province College&Hospital of StomatologyAnhui Medical UniversityHefeiChina department of Stomatology The First Affiliated Hospital of Anhui Medical UniversityHefeiChina department of genetics School of Life ScienceAnhui Medical UniversityHefeiChina

Despite decades of research,cancer continues to be a major global health *** human mouth appears to be a multiplicity of local environments communicating with other organs and causing diseases via ***,the role of oral microbes in the development and progression of cancer has received increasing *** the same time,bioengineering technology and nanotechnology is growing rapidly,in which the physiological activities of natural bacteria are modified to improve the therapeutic efficiency of *** engineered bacteria were transformed to achieve directed genetic reprogramming,selective functional reorganization and precise *** contrast to endotoxins produced by typical genetically modified bacteria,oral flora exhibits favorable biosafety *** outline the current cognitions upon oral microbes,engineered microbes and human cancers,related literatures were searched and reviewed based on the PubMed *** focused on a number of oral microbes and related mechanisms associated with the tumor microenvironment,which involve in cancer occurrence and *** engineering oral bacteria can be a possible application of cancer therapy is worth consideration.A deeper understanding of the relationship between engineered oral bacteria and cancer therapy may enhance our knowledge of tumor pathogenesis thus providing new insights and strategies for cancer prevention and treatment.

关键词： prevention organs precise

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