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Fine mapping and identification of CaTTG1,a candidate gene that regulates the hypocotyl anthocyanin accumulation in Capsicum annuum

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Horticultural plant Journal 2025年第1期11卷 264-274页

作者： Jin Wang Yao Dai Luzhao Pan Ying Chen Li Dai Yanqing Ma Xiaoxun Zhou Wu Miao Muhammad Rizwan Hamid Xuexiao Zou Feng Liu Cheng Xiong Engineering research center for Germplasm innovation and New Varieties Breeding of Horticultural Crops Key Laboratory for Vegetable Biology of Hunan ProvinceCollege of HorticultureHunan Agricultural UniversityChangshaHunan 410000China Hunan Xiangyan seed Industry Co. LTDChangshaHunan 410000China

Pepper(Capsicum annuum L.)is a typical self-pollinating crop with obvious heterosis in ***,the use of morphological markers during the pepper seedling stage is crucial for pepper *** color of hypocotyl is widely used as a phenotypic marker in crossing studies of *** accessions generally have purple hypocotyls,which are mainly due to the anthocyanin accumulation in seedlings,and green hypocotyls are rarely observed in *** we reported the characterization of a green hypocotyl mutant of pepper,Cha1,which was identified from a pepper ethyl methanesulfonate(EMS)mutant *** mapping revealed that the causal gene,CaTTG1,belonging to the WD40 repeat family,controlled the green hypocotyl phenotype of the ***-induced gene silencing(VIGS)confirmed that CaTTG1 regulated anthocyanin ***-seq data showed that expression of structural genes CaDFR,CaANS,and CaUF3GT in the anthocyanin biosynthetic pathway was significantly decreased in Cha1 compared to the wild *** two-hybrid(Y2H)experiments also confirmed that CaTTG1 activated the synthesis of anthocyanin structural genes by forming a MBW complex with CaAN1 and *** summary,this study provided a green hypocotyl mutant of pepper,and the Kompetitive Allele Specific PCR(KASP)marker developed based on the mutation site of the underlying gene would be helpful for pepper breeding.

关键词： Pepper CaTTG1 Anthocyanin Hypocotyl color Fine-mapping

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TavWA1 is critical for wheat growth by modulating cell morphology and arrangement

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Journal of Integrative plant Biology 2025年第1期67卷 71-86页

作者： Guowei Chang Yue Li Lei Peng Chuncai Shen Yipeng Lu Wan Teng Yangyang Liu Yingchun Wang Weiqi Zhu Cuimin Liu Xue He Yiping Tong Xueqiang Zhao key laboratory of seed innovation Institute of Genetics and Developmental BiologyThe Innovative Academy of Seed DesignChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China key laboratory of plant Molecular Physiology Institute of BotanyChinese Academy of SciencesBeijing 100093China State key laboratory of Molecular Developmental Biology Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China Zhaoxian Experiment Station Shijiazhuang Academy of Agricultural and Forestry SciencesZhaoxian 515300China

plant growth is determined by the production of cells and initiation of new *** genes that control cell number and cell size is of great significance for understanding plant growth *** this study,we characterized two wheat mutants,ah and dl,with abnormal *** ah mutant is a naturally occurring variant characterized by severe dwarfism,increased tiller number,and reduced grain length,while the dl mutant is derived from an ethyl methane sulfonate(EMS)-mutagenized population and exhibits smaller grain size and slightly reduced plant *** analyses revealed abnormal cell number,cell morphology and arrangement in the stems and leaves of the ah mutant,along with reduced cell length in the grains of the dl ***-based cloning identified that both mutants carry mutations in the same gene TavWA1-7D,which encodes a protein with a von Willebrand factor A(vWA)*** ah mutant harbors a 174-bp insertion in the 1,402-bp coding sequence(CDS)of TavWA1-7D,causing premature termination of protein translation,while the dl mutant contains a Glu420Lys *** the TavWA1-7D ahthrough clustered regularly interspaced short palindromic repeats(CRISPR)/CRISPR-associated nuclease 9-mediated genome editing leads to a severe dwarfism *** C-terminus of the protein is crucial for its correct subcellular localization and interaction,supporting its critical role for TavWA1-7D *** analysis showed that the dwarf phenotype of the ah mutant is associated with impaired photosynthesis,ribosome function,and nucleosome ***,TavWA1-7D interacts with an E3 ligase,Ta VIP1-3B,the expression levels of which are elevated in both *** and knockout studies of TaVIP1-3B demonstrated its negative regulatory role in cell length and grain ***,our findings suggest that TavWA1-7D plays a vital role in regulating wheat growth and yield-related traits,with the dl mutant's short grain phen

关键词： grain size severe dwarf TaVIP1 TavWA1 wheat

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Epigenetic control of plant abiotic stress responses

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Journal of genetics and Genomics 2025年第2期52卷 129-144页

作者： Lijun Ma Lihe Xing Zicong Li Danhua Jiang key laboratory of seed innovation Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China Ministry of Education key laboratory of plant Development and Environmental Adaption Biology School of Life SciencesShandong UniversityQingdaoShandong 266237China Temasek Life Sciences laboratory 1 Research LinkNational University of SingaporeSingapore 117604Republic of Singapore

On top of genetic information,organisms have evolved complex and sophisticated epigenetic regulation to adjust gene expression in response to developmental and environmental *** epigenetic mechanisms include DNA methylation,histone modifications and variants,chromatin remodeling,and chemical modifications of *** control of environmental responses is particularly important for plants,which are sessile and unable to move away from adverse *** enabling plants to rapidly respond to environmental stresses,some stress-induced epigenetic changes can be maintained,providing plants with a pre-adapted state to recurring *** these epigenetic mechanisms offers valuable insights for developing crop varieties with enhanced stress ***,we focus on abiotic stresses and summarize recent progress in characterizing stress-induced epigenetic changes and their regulatory mechanisms and roles in plant abiotic stress resistance.

关键词： plant Epigeneticslgene expressionlAbiotic stresslEnvironmental memory

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Development and molecular cytogenetic identification of a new wheat-rye 6RL ditelosomic addition and 1R(1B)substitution line with powderymildew resistance

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Journal of Integrative Agriculture 2025年第1期24卷 72-84页

作者： Guohao Han Jing Wang Hanwen Yan Lijun Cao Shiyu Liu Xiuquan Li Yilin Zhou Wei Liu Tiantian Gu Zhipeng Shi Hong Liu Lihui Li Diaoguo An center for Agricultural Resources research Institute of Genetics and Developmental BiologyChinese Academy of SciencesShijiazhuang 050022China national key Facility for Crop gene Resources and genetic Improvement/Institute of Crop Sciences Chinese Academy of AgriculturalSciencesBeijing 100081China State key laboratory for Biology of plant Disease and Insect Pests/Institute of plant Protection Chinese Academy of Agricultural SciencesBeijing 100193China innovation Academy of seed Design Chinese Academy of SciencesBeijing 100101China

Powdery mildew is a serious disease caused by Blumeria graminis ***(Bgt)that critically threatens the yield and quality of wheat(Triticum aestivum L.).Using effective powdery mildew resistance genes is the optimal method for controlling this *** the background of high genetic homogeneity among the modern commercial cultivars that are mainly derived from conventional interbreeding,the resistance genes from wheat relatives have especially prominent *** triticale,produced from common wheat and rye(Secale cereale L.)through distant hybridization,is a new synthetic species and valuable gene donor for wheat *** this study,we developed the wheat-rye line YT5 through the hybridization of octaploid triticale and two wheat ***5 was confirmed to be a 6RL ditelosomic addition and 1R(1B)substitution line using genomic in situ hybridization(GISH),multicolor fluorescence in situ hybridization(mc-FISH),multicolor GISH(mc-GISH)and molecular marker *** analysis showed that the powdery mildew resistance in YT5 was derived from the rye chromosome arm *** inoculation with different Bgt isolates at the seedling stage,YT5 had compound reaction patterns with both obvious spores and hypersensitivity,and it gradually became highly resistant until the adult-plant stage,thus showing a resistance response significantly different from the reported Pm genes from rye chromosome ***5 also showed promising agronomic performance,so it is expected to be an elite resistance donor for wheat *** promote the transfer of the chromosome arm 6RL of YT5 in marker-assisted selection(MAS)breeding,we selected and verified two 6RL-specific kompetitive allelespecific PCR(KASP)markers that can be applied to efficiently detect this chromosome arm in different wheat backgrounds.

关键词： powdery mildew common wheat Triticale 6RL ditelosomic addition line agronomic performance marker-assisted selection(MAS)

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Epigenetics in the modern era of crop improvements

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Science China Life Sciences 2025年

作者： Yan Xue Xiaofeng Cao Xiangsong Chen Xian Deng Xingwang Deng Yong Ding Aiwu Dong Chengguo Duan Xiaofeng Fang Lei Gong Zhizhong Gong Xiaofeng Gu Chongsheng He Hang He Shengbo He Xinjian He Yan He Yuehui He Guifang Jia Danhua Jiang Jianjun Jiang Jinsheng Lai Zhaobo Lang Chenlong Li Qing Li Xingwang Li Bao Liu Bing Liu Xiao Luo Yijun Qi Weiqiang Qian Guodong Ren Qingxin Song Xianwei Song Zhixi Tian Jiawei Wang Yuan Wang Liang Wu Zhe Wu Rui Xia Jun Xiao Lin Xu Zhengyi Xu Wenhao Yan Hongchun Yang Jixian Zhai Yijing Zhang Yusheng Zhao Xuehua Zhong Daoxiu Zhou Ming Zhou Yue Zhou Bo Zhu Jiankang Zhu Qikun Liu College of Life Sciences Institute of Life Science and Green Development Hebei University Biotechnology research Institute Chinese Academy of Agricultural Sciences College of Biology Hunan Key Laboratory of Plant Functional Genomics and Developmental Regulation Hunan Engineering and Technology Research Center of Hybrid Rapeseed Hunan University Institute of Advanced Agricultural Sciences School of Advanced Agricultural Sciences Peking University State key laboratory for Conservation and Utilization of Subtropical Agro-Bioresources Guangdong Laboratory for Lingnan Modern Agriculture South China Agricultural University national Institute of Biological Sciences key laboratory of seed innovation Institute of Genetics and Developmental Biology Chinese Academy of Sciences School of Advanced Agricultural Sciences Peking-Tsinghua Center for Life Sciences Peking University Synthetic and Functional Biomolecules center Beijing National Laboratory for Molecular Sciences Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education College of Chemistry and Molecular Engineering Peking University key laboratory of seed innovation State Key Laboratory of Plant Genomics and National Center for Plant Gene Research Institute of Genetics and Developmental Biology Chinese Academy of Sciences State key laboratory of Wheat Improvement Peking University Institute of Advanced Agricultural Sciences Shandong Laboratory of Advanced Agricultural Sciences in Weifang State key laboratory of Crop Stress Adaptation and Improvement School of Life Sciences Henan University State key laboratory of Maize Bio-breeding National Maize Improvement Center Department of Plant Genetics and Breeding China Agricultural University Frontiers Science center for Molecular Design Breeding China Agricultural University center for Crop Functional Genomics and Molecular Breeding China Agricultural University Sanya Institute of China Agricultural University Hainan Yazhou Bay seed laboratory Institute of Advan

Epigenetic mechanisms are integral to plant growth, development, and adaptation to environmental stimuli. Over the past two decades,our comprehension of these complex regulatory processes has expanded remarkably, producing a substantial body of knowledge on both locus-specific mechanisms and genome-wide regulatory patterns. Studies initially grounded in the model plant Arabidopsis have been broadened to encompass a diverse array of crop species, revealing the multifaceted roles of epigenetics in physiological and agronomic traits. With recent technological advancements, epigenetic regulations at the single-cell level and at the large-scale population level are emerging as new focuses. This review offers an in-depth synthesis of the diverse epigenetic regulations, detailing the catalytic machinery and regulatory functions. It delves into the intricate interplay among various epigenetic elements and their collective influence on the modulation of crop traits. Furthermore, it examines recent breakthroughs in technologies for epigenetic modifications and their integration into strategies for crop improvement. The review underscores the transformative potential of epigenetic strategies in bolstering crop performance, advocating for the development of efficient tools to fully exploit the agricultural benefits of epigenetic insights.

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Antibiotic exposure alters the honeybee gut microbiota and may interfere with the honeybee behavioral caste transition

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Insect Science 2025年第1期32卷 260-276页

作者： Zijing Zhang Xiaohuan Mu Qina Cao Yifan Zhai Li Zheng Yan Liu Hao Zheng Xue Zhang Hebei key laboratory of Animal Physiology Biochemistry and Molecular BiologyHebei Collaborative Innovation Center for Eco-EnvironmentCollege of Life SciencesHebei Normal UniversityShijiazhuangChina College of Food Science and Nutritional Engineering China Agricultural UniversityBejingChina Institute of plant Protection Shandong Academy of Agricultural SciencesJinanChina key laboratory of Natural Enemies Insects Ministry of Agriculture and Rural AffairsJinanChina Department of Entomology College of Plant ProtectionChina AgriculturalUniversityBeijingChina

Behavioral division is essential for the sustainability and reproduction of honeybee *** accumulating evidence has documented that antibiotic exposure interferes with bee behavioral divisions,how the gut microbiome,host physiology,and genetic regulation are implicated in this process remains ***,by constructing single-cohort colonies,we validated that the gut microbiota varied in composition between age-matched nurse and forager *** the gut microbiota with a low dose of antibiotic retained the gut bacterial size,but the structure of the microbial community continuously diverged from the control group after antibiotic *** foragers were observed in the antibiotic groups in the field experiment.A combinatorial effect of decreased gut metabolic gene repertoires,reduced brain neurotransmitter titers,and downregulated brain immune genes could potentially be related to behavioral tasks transition *** work indicates that the disturbance to both the gut microbiome and host physiologies after antibiotic exposure may have implications on social behavior development,highlighting the need for further research focusing on antibiotic pollution threatening the honeybee population's health.

关键词： antibiotic resistance Apis mellifera behavioral development immune genes

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qRfv2,a quantitative resistance locus against Fusarium ear rot in maize

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The Crop Journal 2025年第1期13卷 41-50页

作者： Yanmei Li Xiaobo Tao Lishan Yao Sheng Tang Xiaohui Zhang Lixiu Tong Qingli Liu Tao Song Dongfeng Zhang Yingying Cao Tao Zhong Mingliang Xu State key laboratory of plant Environmental Resilience College of Agronomy and Biotechnology/National Maize Improvement Center/Frontiers Science Center for Molecular Design BreedingChina Agricultural UniversityBeijing 100193China State key laboratory of Crop Germplasm innovation and Molecular Breeding Syngenta Biotechnology(China)Co.Ltd.Beijing 102206China seeds research Syngenta Crop ProtectionLLCResearch Triangle ParkDurhamNC 27709USA School of Food Science and Engineering Shaanxi University of Science and TechnologyXi’an 710021ShaanxiChina

Fusarium ear rot(FER),caused by Fusarium verticillioides,is a destructive fungal disease of *** resistance is a complex,quantitatively inherited trait controlled by multiple minor-effect *** this study,we employed two recombinant inbred line(RIL)populations with the common resistant parental line CML304 to identify FER-resistance *** QTL analysis identified 23 FER-resistance QTL,each explaining 5.21%-30.51%of the total phenotypic ***,one major QTL,qRfv2,on chromosome 2 was repeatedly detected,accounting for 11.92%-30.51%of the total phenotypic ***2 was fine mapped to an interval of 1.01 Mb,flanked by the markers IDP8 and ***2 is a semidominant resistance gene that could reduce the disease severity index(DSI)by 12.4%-20%,suggesting its potential for enhancing FER resistance in *** analysis showed that 22 of the 28 annotated functional genes in the qRfv2 region displayed differential expression between parental lines in response to *** of the candidate genes,ZmLOX6,was validated to presumably provide a positive effect on FER *** study provides a basis for the potential cloning and application of FER resistance genes in maize breeding.

关键词： Zea mays Fusarium ear rot Fusarium verticillioides QTL mapping

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Compiling molecular evidence from a tetraploid rose genome into a near-saturated map for the identification of pigment-related genes

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Horticultural plant Journal 2025年第1期11卷 351-366页

作者： Bixuan Cheng Yanlin Sun Huihua Wan Kai Zhao Lidan Sun Le Luo Huitang Pan Qixiang Zhang Chao Yu State key laboratory of Efficient Production of Forest Resources Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular BreedingNational Engineering Research Center for FloricultureBeijing Laboratory of Urban and Rural Ecological Environment and School of Landscape ArchitectureBeijing Forestry UniversityBeijing 100083China key laboratoryof Beijing for Identification and Safety Evaluation of Chinese Medicine Instituteof Chinese Materia MedicaChina Academy of Chinese Medical SciencesBeijing 100700China College of Life Sciences Fujian Normal UniversityFuzhouFujian 350117China

With their high economic value and cultural significance,modern roses are one of the most important ornamental *** of their complicated genetic background and tetraploid nature,the creation of high-density genetic maps of roses has been a challenge that has slowed the pace of molecular breeding for modern *** current construction of tetraploid genetic maps based on existing diploid rose genomes could lead to inaccurate marker information and genotyping ***,we generated the first high-quality tetraploid genome of Rosa chinensis‘Yunzheng Xiawei.'Utilizing Illumina,PacBio,and Hi-C sequencing technologies,we assembled a genome of 858.59 Mb with *** of inheritance analysis using PolyOrigin indicated that modern roses show both quadrivalent and bivalent *** on this reference genome,high-density genetic maps were constructed using MSTmap with nearly saturated *** trait locus(QTL)analysis was conducted using WinQTLCart and R/qtl for flavonoids and carotenoids,and 11 QTL clusters were *** combining the genome annotation,phylogenetic analyses,and gene expression analyses,we were able to identify several key genes related to flavonoid and carotenoid *** study provides the basis for further genetic analyses of highly heterozygous tetraploid roses and could facilitate the progress of marker-assisted selection in modern roses.

关键词： Rosa Tetraploid genome Tetrasomic inheritance genetic linkage map Flower color

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Rosaceae phylogenomic studies provide insights into the evolution of new genes

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Horticultural plant Journal 2025年第1期11卷 389-405页

作者： Lan Jiang Xiaoxu Li Kun Lyu Han Wang Zhiyuan Li Wang Qi Lin Zhang Yunpeng Cao Anhui Province key laboratory of Non-coding RNA Basic and Clinical Transformation(Wannan Medical College) Central LaboratoryYijishan Hospital of Wannan Medical CollegeWuhuAnhui 241000China Beijing Life Science Academy Beijing 102209China CAS key laboratory of plant Germplasm Enhancement and Specialty Agriculture Wuhan Botanical GardenChinese Academy of SciencesWuhanHubei 430074China center of Economic Botany Core Botanical GardensChinese Academy of SciencesWuhanHubei 430074China key laboratory for Tobacco gene Resources Tobacco Research InstituteChinese Academy of Agricultural SciencesQingdaoShangdong 266000China school of Life Sciences Anhui Agricultural UniversityHefeiAnhui 230036China School of Basic Medical Sciences Hubei University of Chinese MedicineWuhanHubei 430065China

Rosa banksiae,known as Lady Banks'rose,is a perennial ornamental crop and a versatile herb in traditional Chinese *** the lack of genomic resources,we assembled a Hi Fi and Nanopore sequencing-derived 458.58 Mb gap-free telomere-to-telomere high-quality *** genome with a scaffold N50=63.90 *** genome of *** exhibited no lineage-specific whole-genome duplication compared with other *** phylogenomic analysis of 13 Rosaceae and Arabidopsis through a comparative genomics study showed that numerous gene families were lineage-specific both before and after the diversification of *** of these genes are candidates for new genes that have evolved from parental genes through fusion *** genes are divided into three types:Type-I and Type-II genes contain two parental genes that are generated by duplication,distributed in the same and different regions of the genome,respectively;and Type-III can only be detected in one parental ***,Type-I genes are found to have more relaxed selection pressure and lower Ks values than Type-II,indicating that these newly evolved Type-I genes may play important roles in driving phenotypic *** analysis exhibited that newly formed fusion genes can regulate the phenotype traits of plant growth and development,suggesting the functional significance of these *** study identifies new fusion genes that could be responsible for phenotype evolution and provides information on the evolutionary history of recently diverged species in the Rosa *** data represents the major progress in understanding the new fusion genes evolution pattern of Rosaceae and provides an invaluable resource for phylogenomic studies in plants.

关键词： Rosa banksiae Gap-free genome Rosaceae Phenotype Evolutionary patterns

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Regulation of Yield and Eating and Cooking Quality in Rice Through seed Albumin OsRAL5

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Rice science 2025年第1期32卷 6-10,I0010-I0016页

作者： ZHAO Chunfang HE Lei GUAN Ju LUO Lei ZHAO Ling ZHOU Lihui YAO Shu CHEN Tao ZHU Zhen ZHAO Qingyong WANG Cailin ZHANG Yadong key laboratory of Jiangsu Province for Agrobiology/East China Branch of national center of Technology innovation for Saline-Alkali Tolerant Rice/Institute of Food Crops Jiangsu Academy of Agricultural ScienceNanjing 210014China

seed storage proteins and their abundance are closely related to the formation of rice quality and grain size.A better understanding of the molecular basis of seed storage proteins will provide important information for developing new rice breeding *** this study,we report that a seed storage protein albumin,named OsRAL5,positively regulates rice quality and grain ***5 is specifically expressed during the grain-filling stage,suggesting its key role in regulating seed *** editing of OsRAL5 using the CRISPR/Cas9 system diminished grain size and weight,resulting in the development of white-core endosperm and a reduction in eating and cooking quality(ECQ).Conversely,the endosperm appearance became transparent,and both grain weight and ECQ improved in the OsRAL5 over-expressed *** major seed storage components differed significantly between the OsRAL5-edited(dOsRAL5-TS)and OsRAL5-overexpressed(OsRAL5-OE)lines compared with the wild *** protein and total lipid contents both decreased in the dOsRAL5-TS lines and increased in the OsRAL5-OE ***,the over-expression of OsRAL5 significantly increased nutritional content and simultaneously improved yield and *** results imply that OsRAL5 might be a promising candidate gene for breeding super rice varieties with increased yield potential and superior quality.

关键词： CRISPR/Cas9 breeding Albumin

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