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Journal of Integrative Agriculture 2024年第7期23卷 2164-2177页

作者： Bingli Jiang Wei Gao Yating Jiang Shengnan Yan Jiajia Cao Litian Zhang Yue Zhang Jie Lu Chuanxi Ma Cheng Chang Haiping Zhang key laboratory of Wheat Biology and genetic improvement on Southern Yellow&Huai River Valley Ministry of Agriculture and Rural Affairs/College of AgronomyAnhui Agricultural UniversityHefei 230036China

The P-type plasma membrane(PM)H^(+)-ATPases(HAs)are crucial for plant development,growth,and *** HAs have been thoroughly characterized in many different ***,despite their importance,the functions of HAs in germination and seed dormancy(SD)have not been validated in ***,we identified 28 TaHA genes(TaHA1-28)in common wheat,which were divided into five *** examination of gene expression in strong-and weak-SD wheat varieties led to the discovery of six candidate genes(TaHA7/-12/-14/-16/-18/-20).Based on a single nucleotide polymorphism(SNP)mutation(C/T)in the TaHA7 coding region,a CAPS marker(HA7)was developed and validated in 168 wheat varieties and 171 Chinese mini-core collections that exhibit diverse germination and SD *** further verified the roles of the two allelic variations of TaHA7 in germination and SD using wheat mutants mutagenized with ethyl methane sulphonate(EMS)in‘Jimai 22’and‘Jing 411’backgrounds,and in transgenic Arabidopsis ***7 appears to regulate germination and SD by mediating gibberellic acid(GA)and abscisic acid(ABA)signaling,metabolism,and *** results presented here will enable future research regarding the TaHAs in wheat.

关键词： wheat P-type plasma membrane H^(+)-ATPase seed dormancy abscisic acid gibberellin

A k-mer-based pangenome approach for cataloging seed-storage-protein genes in wheat to facilitate genotype-to-phenotype prediction and improvement of end-use quality

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Molecular Plant 2024年第7期17卷 1038-1053页

作者： Zhaoheng Zhang Dan Liu Binyong Li Wenxi Wang Jize Zhang Mingming Xin Zhaorong Hu Jie Liu Jinkun Du Huiru Peng Chenyang Hao Xueyong Zhang Zhongfu Ni Qixin Sun Weilong Guo Yingyin Yao Frontiers Science Center for Molecular Design Breeding Key Laboratory of Crop Heterosis and Utilization(MOE)and Bejing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing100193China key laboratory of Crop Gene Resources and Breeding Institute of Crop ScienceChinese Academy of Agricultural SciencesBejingChina

Wheat is a staple foodfor more than 35%of the world's population,with wheatflourused to make hundreds of baked *** end-use quality is a major breeding target;however,improving it is especially time-consuming and ***,genes encoding seed-storage proteins(ssPs)form multigene families and are repetitive,with gaps commonplace in several genome *** overcome these barriers and efficiently identify superior wheat SSP alleles,we developed"PanSK"(Pan-SSP k-mer)for genotype-to-phenotype prediction based on an SsP-based pangenome *** uses 29-mer sequences that represent each ssP gene at the pangenomic level to reveal untapped diversity across landraces and modern ***-wide association studies with k-mers identified 23 Ssp genes associated with end-use quality that represent novel targets for *** evaluated the effect of rye secalin genes on end-use quality and found that removal of w-secalins from 1BL/1RS wheat translocation lines is associated with enhanced end-use ***,using machine-learning-based prediction inspired by PanSK,we predicted the quality phenotypes with high accuracy from genotypes *** study provides an effective approach for genome design based on ssP genes,enabling the breeding of wheat varieties with superior processing capabilities and improved end-use quality.

关键词： wheat seed-storage protein end-use quality k-mer pangenome genomic prediction

Overcoming genotypic dependency and bypassing immature embryos in wheat transformation by using morphogenic regulators

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Science China(Life Sciences) 2024年第7期67卷 1535-1538页

作者： Ziru Zhou Yawen Yang Guo Ai Miaomiao Zhao Baozhu Han Chunjie Zhao Yiqian Chen Yuwei Zhang Hong Pan Caixia Lan Chao He Qiang Li Jieting Xu Wenhao Yan National key laboratory of Crop genetic improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China WIMI Biotechnology Co. Ltd.Changzhou 213025China

Dear Editor,Agrobacterium-mediated transformation technology is of vital importance for functional genomics studies and precision breeding in crops due to low cost and clear genetic manifestation.A morphogenic gene pa... 详细信息

关键词： breeding crops transformation

Targeted mutations of BnPAP2 lead to a yellow seed coat in Brassica napus L.

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Journal of Integrative Agriculture 2024年第2期23卷 724-730页

作者： Wei Huang Ruyu Jiao Hongtao Cheng Shengli Cai Jia Liu Qiong Hu Lili Liu Bao Li Tonghua Wang Mei Li Dawei Zhang Mingli Yan Hunan Research Center of Heterosis Utilization in Rapeseed/Crop Research Institute Hunan Academy of Agricultural SciencesChangsha 410125China Hunan key laboratory of Economic Crops genetic improvement and Integrated Utilization/School of Life and Health Science Hunan University of Science and TechnologyXiangtan 411201China key laboratory of Biology and genetic improvement of Oil Crops Ministry of Agriculture and Rural Affairs/Oil Crops Research InstituteChinese Academy of Agricultural SciencesWuhan 430062China

The yellow seed trait is preferred by breeders for its potential to improve the seed quality and commercial value of Brassica *** the present study,we produced yellow seed mutants using a CRISPR/Cas9 system when the two BnPAP2 homologs were knocked *** staining of the seed coat demonstrated that proanthocyanidin accumulation was significantly reduced in the pap2 double mutants and decreased specifically in the endothelial and palisade layer cells of the seed *** and metabolite profiling analysis suggested that disruption of the BnPAP2 genes could reduce the expression of structural and regulated genes in the phenylpropanoid and flavonoid biosynthetic *** broad suppression of these genes might hinder proanthocyanidin accumulation during seed development,and thereby causing the yellow seed trait in *** results indicate that BnPAP2 might play a vital role in the regulatory network controlling proanthocyanidin accumulation.

关键词： yellow seed BnPAP2 proanthocyanidins CRISPR/Cas9

OsPRMT6a-mediated arginine methylation of OsJAZ1 regulates jasmonate signaling and spikelet development in rice

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Molecular Plant 2024年第6期17卷 900-919页

作者： Kun Dong Fuqing Wu Siqi Cheng Shuai Li Feng Zhang Xinxin Xing Xin Jin Sheng Luo Miao Feng Rong Miao Yanqi Chang Shuang Zhang Xiaoman You Peiran Wang Xin Zhang Cailin Lei Yulong Ren Shanshan Zhu Xiuping Guo Chuanyin Wu Dong-Lei Yang Qibing Lin Zhijun Cheng Jianmin Wan State key laboratory of Crop Gene Resources and Breeding National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China State key laboratory for Crop genetics and Germplasm Enhancement Nanjing Agricultural UniversityNanjing 210095China

Although both protein arginine methylation(PRMT)and jasmonate(JA)signaling are crucial for regulating plant development,the relationship between these processes in the control of spikelet development remains *** this study,we used the CRISPR/Cas9 technology to generate two OsPRMT6a loss-of-function mutants that exhibit various abnormal spikelet ***,we found that OsPRMT6a can methylate arginine residues in JA signal repressors OsJAZ1 and *** showed that arginine methylation of OsJAZ1 enhances the binding affinity of OsJAZ1 with the JA receptors OsCOI1a and OsCOI1b in the presence of JAs,thereby promoting the ubiquitination of OsJAZ1 by the SCF^(OsCOI1a/OsCOI1b) complex and degradation via the 26S *** process ultimately releases OsMYC2,a core transcriptional regulator in the JA signaling pathway,to activate or repress JA-responsive genes,thereby maintaining normal plant(spikelet)***,in the osprmt6a-1 mutant,reduced arginine methylation of OsJAZ1 impaires the interaction between OsJAZ1 and OsCOI1a/OsCOI1b in the presence of *** a result,OsJAZ1 proteins become more stable,repressing JA responses,thus causing the formation of abnormal spikelet ***,we discovered that JA signaling reduces the OsPRMT6a mRNA level in an OsMYC2-dependent manner,thereby establishing a negative feedback loop to balance JA *** further found that OsPRMT6a-mediated arginine methylation of OsJAZ1 likely serves as a switch to tune JA signaling to maintain normal spikelet development under harsh environmental conditions such as high ***,our study establishes a direct molecular link between arginine methylation and JA signaling in rice.

关键词： protein arginine methylation jasmonate signaling negative feedback loop spikelet development adaptation to heat stress rice

Engineering disease-resistant plants with alternative translation efficiency by switching uORF types through CRISPR

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Science China(Life Sciences) 2024年第8期67卷 1715-1726页

作者： Jingjing Tian Zhijuan Tang Ruixia Niu Yulu Zhou Dan Yang Dan Chen Ming Luo Rui Mou Meng Yuan Guoyong Xu National key laboratory of Crop genetic improvement National Centre of Plant Gene Research(Wuhan)Huazhong Agricultural UniversityWuhan 430070China State key laboratory of Hybrid Rice Institute for Advanced Studies(IAS)Wuhan UniversityWuhan 430072China Hubei Hongshan laboratory Wuhan 430070China

Engineering disease-resistant plants can be a powerful solution to the issue of food ***,it requires addressing two fundamental questions:what genes to express and how to control their *** find a solution,we screen CRISPR-edited upstream open reading frame(uORF)variants in rice,aiming to optimize translational control of disease-related *** switching uORF types of the 5′-leader from Arabidopsis TBF1,we modulate the ribosome accessibility to the downstream firefly *** assume that by switching uORF types using CRISPR,we could generate uORF variants with alternative translation efficiency(CRISPR-aTrE-uORF).These variants,capable of boosting translation for resistance-associated genes and dampening it for susceptible ones,can help pinpoint previously unidentified genes with optimal expression *** test the assumption,we screened edited uORF variants and found that enhanced translational suppression of the plastic glutamine synthetase 2 can provide broad-spectrum disease resistance in rice with minimal fitness *** strategy,which involves modifying uORFs from none to some,or from some to none or different ones,demonstrates how translational agriculture can speed up the development of disease-resistant *** is vital for tackling the food security challenges we face due to growing populations and changing climates.

关键词： disease-resistant plants broad-spectrum disease resistance uORF uORF types uORF variants CRISPR

Functional prediction of tomato PLATZ family members and functional verification of Sl PLATZ17

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Journal of Integrative Agriculture 2024年第1期23卷 141-154页

作者： Min Xu Zhao Gao Dalong Li Chen Zhang Yuqi Zhang Qian He Yingbin Qi He Zhang Jingbin Jiang Xiangyang Xu Tingting Zhao College of Horticulture and Landscape Architecture Northeast Agricultural UniversityHarbin 150030China key laboratory of Biology and genetic improvement of Horticultural Crops(Northeast Region) Ministry of Agriculture and Rural AffairsHarbin 150030China

PLATZ is a novel zinc finger DNA-binding protein that plays an important role in regulating plant growth and development and resisting abiotic ***,there has been very little research on the function of this family gene in tomatoes,which limits its application in germplasm resource ***,the PLATZ gene family was identified and analyzed in tomato,and its roles were predicted and verified to provide a basis for in-depth research on SlPLATZ gene *** this study,the PLATZ family members of tomato were identified in the whole genome,and 19 SlPLATZ genes were *** prediction was conducted based on gene and promoter structure analysis and RNA-seq-based expression pattern *** genes that responded significantly under different abiotic stresses or were significantly differentially expressed among multiple tissues were screened as functional gene ***17 was selected for functional verification by experiment-based *** results showed that the downregulation of SlPLATZ17 gene expression reduced the drought and salt tolerance of tomato *** plants overexpressing SlPLATZ17 had larger flower sizes and long,thin petals,adjacent petals were not connected at the base,and the stamen circumference was *** study contributes to understanding the functions of the SlPLATZ family in tomato and provides a reference for functional gene screening.

关键词： tomato PLATZ family abiotic stresses plant development

Improved genome annotation of Brassica oleracea highlights the importance of alternative splicing

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Horticultural Plant Journal 2024年第4期10卷 961-970页

作者： Yinqing Yang Lei Zhang Qi Tang Lingkui Zhang Xing Li Shumin Chen Kang Zhang Ying Li Xilin Hou Feng Cheng State key laboratory of Crop genetics and Germplasm Enhancement College of HorticultureNanjing Agricultural UniversityNanjing 210095China State key laboratory of Vegetable Biobreeding Institute of Vegetables and FlowersChinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture and Rural AffairsSino-Dutch Joint Laboratory of Horticultural GenomicsBeijing 100081China

Brassica oleracea has been developed into many important crops,including cabbage,kale,cauliflower,broccoli and so *** genome and gene annotation of cabbage(cultivar JZS),a representative morphotype of ***,has been widely used as a common reference in biological *** its genome assembly has been updated twice,the current gene annotation still lacks information on untranslated regions(UTRs)and alternative splicing(AS).Here,we constructed a high-quality gene annotation(JZSv3)using a full-length transcriptome acquired by nanopore sequencing,yielding a total of 59452 genes and 75684 ***,we re-analyzed the previously reported transcriptome data related to the development of different tissues and cold response using JZSv3 as a reference,and found that 3843 out of 11908 differentially expressed genes(DEGs)underwent AS during the development of different tissues and 309 out of 903 cold-related genes underwent AS in response to cold ***,we also identified many AS genes,including BolLHCB5 and BolHSP70,that displayed distinct expression patterns within variant transcripts of the same gene,highlighting the importance of JZSv3 as a pivotal reference for AS ***,JZSv3 provides a valuable resource for exploring gene function,especially for obtaining a deeper understanding of AS regulation mechanisms.

关键词： Brassica oleracea Oxford nanopore technologies Gene annotation Alternative splicing

Unravelling the genetic basis for skeletal muscle mitochondrial DNA copy number variations in pigs

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Science China(Life Sciences) 2024年第1期67卷 211-214页

作者： Jiawen Yang Leilei Cui Yifeng Zhang Ziqi Ling Zhou Zhang Yizhong Huang Junwu Ma Shijun Xiao Bin Yang Lusheng Huang National key laboratory for Swine genetic improvement and Germplasm Innovation Jiangxi Agricultural UniversityNanchang 330045China School of Life Sciences Nanchang UniversityNanchang 330047China

Dear Editor,Mitochondria are the center of cellular energy generation and free radical metabolism,with important functions in regulating intracellular calcium levels,cell apoptosis,cell cycle and epigenetic *** DNA copy number(mtDNA-CN)is an indicator of mitochondrial biogenesis and has been associated with several diseases,such as cardiovascular disease,depression,chronic kidney disease and aging in humans(Clyde,2022).

关键词： metabolism cardiovascular diseases

Searching for plant NLR immune receptors conferring resistance to potyviruses

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The Crop Journal 2024年第1期12卷 28-44页

作者： Xin Hong Shufen Li Xiaofei Cheng Haijian Zhi Jinlong Yin Kai Xu Jiangsu key laboratory for Microbes and Functional Genomics Jiangsu Engineering and Technology Research Center for MicrobiologyCollege of Life SciencesNanjing Normal UniversityNanjing 210023JiangsuChina College of Plant Protection Northeast Agricultural UniversityHarbin 150030HeilongjiangChina National Center for Soybean improvement National Key Laboratory for Crop Genetics and Germplasm EnhancementKey Laboratory of Biology and Genetic Improvement of Soybean-Ministry of AgricultureNanjing Agricultural UniversityNanjing 210095JiangsuChina

To fight against invasion by pathogens,plants have evolved an elaborate innate immune system,of which the nucleotide-binding domain leucine-rich repeat-containing receptor(NLR)acts as the sensor and immune ***,comprising one of the largest genera of plant viruses,cause severe crop yield losses *** crop resistance to potyviruses can be used in breeding and plant transgenesis to control disease *** review summarizes achievements in mapping and cloning NLR genes conferring dominant resistance against potyvirus in the families Fabaceae,Solanaceae,Brassicaceae,and *** compares mechanisms of potyviral protein recognition and downstream signaling employed by NLRs and discusses strategies for exploiting NLRs to better control diseases caused by potyviruses.

关键词： NLR Potyvirus resistance genetic diversity Mapping Engineer