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Crop antiviral defense: Past and future perspective

Science China Life Sciences 2024年

作者： Zhirui Yang Guangyao Li Yongliang Zhang Fangfang Li Tao Zhou Jian Ye Xianbing Wang Xiaoming Zhang Zongtao Sun Xiaorong Tao Ming Wu Jianguo Wu Yi Li The State Key Laboratory of Protein and plant Gene Research School of Life Sciences Peking University State Key Laboratory of plant Environmental Resilience Frontiers Science Center for Molecular Design Breeding College of Biological Sciences China Agricultural University State Key Laboratory for Ecological Pest control of Fujian and Taiwan Crops Vector-borne Virus Research Center College of Plant Protection Fujian Agriculture and Forestry University State Key Laboratory for Biology of plant diseases and Insect pests Institute of Plant Protection Chinese Academy of Agricultural Sciences State Key Laboratory for Agro-Biotechnology and Department of plant Pathology China Agricultural University State Key Laboratory of plant Genomics Institute of Microbiology Chinese Academy of Sciences State Key Laboratory of Integrated Management of Pest Insects and Rodents Institute of Zoology Chinese Academy of SciencesCAS Center for Excellence in Biotic Interactions University of Chinese Academy of Sciences State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province Institute of Plant Virology Ningbo University Department of plant Pathology The Key Laboratory of Plant Immunity Nanjing Agricultural University

Viral pathogens not only threaten the health and life of humans and animals but also cause enormous crop yield losses and contribute to global food insecurity. To defend against viral pathogens, plants have evolved an intricate immune system to perceive and cope with such attacks. Although most of the fundamental studies were carried out in model plants, more recent research in crops has provided new insights into the antiviral strategies employed by crop plants. We summarize recent advances in understanding the biological roles of cellular receptors, RNA silencing, RNA decay, hormone signaling, autophagy, and ubiquitination in manipulating crop host-mediated antiviral responses. The potential functions of circular RNAs, the rhizosphere microbiome, and the foliar microbiome of crops in plant-virus interactions will be fascinating research directions in the future. These findings will be beneficial for the development of modern crop improvement strategies.

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通过机器学习开发基于作物基因型的抗病表型精准预测方法（英文）

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Engineering 2024年第9期 100-110页

作者：刘琪左世敏彭沙莎张昊彭烨李魏熊叶辉林润茂冯志明李慧慧杨俊王国梁康厚祥 State Key Laboratory for Biology of plant diseases and Insect pests Institute of Plant Protection Chinese Academy of Agricultural Sciences Zhongshan biological Breeding Laboratory & Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding Agricultural College of Yangzhou University Hunan Provincial Key Laboratory of Crop Germplasm Innovation and Utilization and college of Agronomy Hunan Agricultural University State Key Laboratory of Crop Gene Resources and Breeding Institute of Crop Sciences Chinese Academy of Agricultural Sciences college of plant protection Hunan Agricultural University Key Laboratory of Green Prevention and control of Tropical plant diseases and pests Ministry of Education College of Plant Protection Hainan University MARA Key Laboratory of Surveillance and Management for plant Quarantine pests Department of Plant Biosecurity College of Plant Protection China Agricultural University Department of plant Pathology Ohio State University

The traditional method of screening plants for disease resistance phenotype is both time-consuming and costly. Genomic selection offers a potential solution to improve efficiency, but accurately predicting plant disease resistance remains a challenge. In this study, we evaluated eight different machine learning(ML)methods, including random forest classification(RFC), support vector classifier(SVC), light gradient boosting machine(light GBM), random forest classification plus kinship(RFC＿K), support vector classification plus kinship(SVC＿K), light gradient boosting machine plus kinship(light GBM＿K), deep neural network genomic prediction(DNNGP), and densely connected convolutional networks(Dense Net), for predicting plant disease resistance. Our results demonstrate that the three plus kinship(K) methods developed in this study achieved high prediction accuracy. Specifically, these methods achieved accuracies of up to 95% for rice blast(RB), 85% for rice black-streaked dwarf virus(RBSDV), and 85% for rice sheath blight(RSB) when trained and applied to the rice diversity panel I(RDPI). Furthermore, the plus K models performed well in predicting wheat blast(WB) and wheat stripe rust(WSR) diseases, with mean accuracies of up to 90% and 93%, respectively. To assess the generalizability of our models, we applied the trained plus K methods to predict RB disease resistance in an independent population, rice diversity panel Ⅱ(RDPⅡ). Concurrently, we evaluated the RB resistance of RDPⅡ cultivars using spray inoculation. Comparing the predictions with the spray inoculation results, we found that the accuracy of the plus K methods reached 91%. These findings highlight the effectiveness of the plus K methods(RFC＿K, SVC＿K, and light GBM＿K) in accurately predicting plant disease resistance for RB, RBSDV, RSB,WB, and WSR. The methods developed in this study not only provide valuable strategies for predicting disease resistance, but also pave the way for using machine learning to str

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Isolation and Characterization of NBS-LRR Class Resistance Homologous Gene from Wheat

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Agricultural Sciences in China 2011年第8期10卷 1151-1158页

作者： ZHANG Nan WANG Shen WANG Hai-yan LIU Da-qun college of plant protection/biological control center of plant disease and plant pests of hebei province Agricultural University of HebeiBaoding 071001P.R.China

One resistance gene analog fragment named RGA-CIN14 was isolated from TcLr19 wheat,which contains kinase-2,kinase-3a,and the GLPL motif of the NBS-spanning region,using degenerated primers according to the nucleotide binding site （NBS） conserved *** on the RGA-CIN14,a full-length cDNA,CIN14,which was 2 987 bp encoding 880 amino acids,was obtained by using the method of the rapid amplification cDNA ends （RACE）.Bioinformatics analysis showed that the deduced amino acids of CIN14 protein consisted of a NB-ARC conserved domain and many leucine-rich repeats （LRR） *** phylogenetic tree analysis indicated a considerable identity of the protein encoded by CIN14 with that of wheat leaf rust resistance gene Lr1,but a lower similarity with *** expression profile of the CIN14 gene detected by semi-quantitative RT-PCR showed that the CIN14 gene was not induced by Puccinia triticina and it was a constitutive gene with low abundance in the wheat leaf *** resistance homology sequence was successfully obtained,which provides the shortcut for cloning of the resistance gene in TcLr19 wheat.

关键词： wheat leaf rust resistance gene NBS-LRR resistance gene analogs (RGAs) rapid amplification cDNA end (RACE) RT-PCR

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TaRAR1 is Required for Lr24-Mediated Wheat Leaf Rust Resistance

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Agricultural Sciences in China 2011年第11期10卷 1732-1738页

作者： ZHANG Li-rong YANG Wen-xiang LIU Da-qun college of plant protection Biological Control Center of Plant Diseases and Pests of Hebei Province Agricultural University of HebeiBaoding 071001 P.R.China

Virus-induced gene silencing （VIGS） offers a rapid and high throughout technology platform for the analysis of gene function in plants. The barley stripe mosaic virus （BSMV） VIGS system was optimized in studies silencing phytoene desaturase expression in wheat, and demonstrated that infection with BSMV construct carrying a 412 bp fragment of TaRAR1 caused conversion of incompatible to compatible interactions to Lr24-mediated resistance in wheat TcLr24 and cultivar 5R615 harboring Lr24 whereas infection with a control construct had no effect on resistance or susceptibility. RT- PCR analysis showed that BSMV-induced gene silencing could be detected at mRNA levels. These studies indicated that TaRAR1 was a required component for Lr24-mediated race-specific resistance and the BSMV-VIGS was a powerful tool for dissecting the genetic pathways of disease resistance in hexaploid wheat.

关键词： disease resistance barley stripe mosaic virus (BSMV) virus-induced gene silencing (VIGS) Lr24 RAR1

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A SSR Marker for Leaf Rust Resistance Gene Lr19 in Wheat

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Agricultural Sciences in China 2006年第2期5卷 111-115页

作者： LI Xing YANG Wen-xiang LI Ya-ning LIU Da-qun YAN Hong-fei MENG Qing-fang ZHANG Ting Department of plant Pathology College of Plant Protection Hebei Agricultural University/Biological Control Center of Plant Diseasesand Plant Pests of Hebei Province Baoding 071001 P.R.China

Microsatellite was carded out in Thatcher, six near-isogenic lines and F2 progeny of TcLr19xThatcher to develop molecular markers for leaf rust resistance gene Lr19. Thirteen primer pairs were screened, of which one primer pair Xgwm44 displayed polymorphsim in the population of TcLr 19, Thatcher, and their F2 generations. One marker closed linked to Lr19 resistance trait was obtained, and was named Xgwm44139bp with the genetic distance 0.9 cM. The research shows that Lr19 has more potential in marker-assisted breeding programs in wheat and provides a step stone for mapping genetic map, physical map and the eventual cloning.

关键词： wheat leaf rust Lr19 microsatellite

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Molecular Markers for Leaf Rust Resistance Gene Lr45 in Wheat Based on AFLP Analysis

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Agricultural Sciences in China 2006年第12期5卷 938-943页

作者： ZHANG Na YANG Wen-xiang YAN Hong-fei LIU Da-qun CHU Dong MENG Qing-fang ZHANG Ting Department of plant Pathology College of Plant Protection/Biological Control Center of Plant Diseases and Pests of Hebei Province Agricultural University of Hebei Baoding 071001 P.R.China Agricultural Department of hebei province Shijiazhuang 050011 P.R. China

Amplified fragment length polymorphism （AFLP） analysis was carried out in Thatcher, near isogenic lines （NILs） canting different genes conferring resistance against wheat leaf rust, and TcLr45 × Thatcher F2 progenies were used to develop markers for Lr45 gene. Sixty AFLP primer combinations were screened and most of them provided clear amplification products, 31 primer combinations displayed polymorphism of TcLr45 in 23 NILs. Two AFLP markers closely linked to the gene Lr45 were acquired： P-AGG/M-GAG261bp, which was found closely linked to the Lr45 locus at a distance of 0.6 cM on one side, and P-ACA/M-GGT105bp, which was found at a distance of 1.3 cM on the other side. The specific hands were cloned and subsequently sequenced. The 261-bp fragment produced by P-AGG/M-GAG showed 86% similarity with the sequence of Vulgate Hort I gene; the 105-bp fragment produced by P-ACA/M-GGT showed 96% similarity with the phosphatidylserine decarboxylase gene of the Triticum monococcum. Both included an open reading frame （ORF）.

关键词： wheat leaf rust AFLP Lr45 gene localization

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Transgenic expression of TaTLP1, a thaumatin-like protein gene, reduces susceptibility to common root rot and leaf rust in wheat

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The Crop Journal 2021年第5期9卷 1214-1218页

作者： Zhongchi Cui Fang Liang Jiarui Zhang Fei Wang Daqun Liu Haiyan Wang Technological Innovation center for biological control of Crop diseases and Insect pests of hebei province College of Plant ProtectionHebei Agricultural UniversityBaoding 071000HebeiChina Graduate School of Chinese Academy of Agricultural Sciences Beijing 100081China

Thaumatin-like protein (TLP) plays an important role in combating plant pathogen *** root rot caused by Bipolaris sorokiniana and leaf rust caused by Puccinia triticina (Pt) are major fungal diseases in *** disease responses of TaTLP1-overexpressing transgenic lines (TaTLP1-OE) were evaluated after inoculation with each *** TaTLP1-OE lines had no apparent differences in tiller number and 1000-kernel weight from the wild type Jinan Wheat No.1 (JW1),whereas resistance to leaf rust and common root rot was improved,resulting from activated peroxidase and b-1,3-glucanase after *** infection,and reactive oxygen species-related genes were upregulated in Ta TLP1-OE lines after Pt *** results indicated that stable expression of TaTLP1 increased resistance against both diseases.

关键词： Bipolaris sorokiniana disease resistance Puccinia triticina Transgenic wheat

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biological Characteristics of the Pathogen Phyllosticta capitalensis Causing Banana Freckle disease in Hainan province

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plant diseases and pests 2024年第4期15卷 17-20页

作者： Yanxiang QI Hong ZHAO Zhaojing ZHANG Yanfei OUYANG Xin ZHANG Environment and plant protection Institute Chinese Academy of Tropical Agricultural SciencesHaikou 571101China State Key Laboratory of Green Pesticide Key Laboratory of Green Pesticide and Agricultural BioengineeringMinistry of EducationCenter for R&D of Fine Chemicals of Guizhou UniversityGuiyang 550025China college of plant Science and Technology of Huazhong Agricultural University Wuhan 430070China

[Objectives]This study was conducted to clarify the biological characteristics of the pathogen Phyllosticta capitalensis,the causal agent of freckle disease on Cavendish banana in Hainan province,China.[Methods]The impact of various nutritional and environmental factors,including media,carbon sources,nitrogen sources,temperature,pH and light on the growth and sporulation of *** was assessed using two distinct methods:mycelium growth rate and blood counting chamber.[Results]The mycelial growth and sporulation of *** on different media exhibited notable *** use of banana leaf extract dextrose agar(BLEAD)and carrot agar(CA)was observed to facilitate rapid mycelial *** potato dextrose agar(PDA)and potato sucrose agar(PSA)were conducive to the production of *** utilization of distinct carbon and nitrogen sources exerted a pronounced influence on the growth of ***,dextrose,fructose,and casein acid hydrolysate were the preferred substrates for mycelial *** tested carbon and nitrogen sources did not significantly stimulate conidial production,whereas dextrose and NaNO 3 were found to favor *** optimal temperature for mycelial growth and conidial production was determined to be 28 and 32℃,*** mycelial growth was observed at 5℃.Active mycelial growth was observed at pH 6-10,with pH 6-7 being particularly conducive to *** darkness was conducive to mycelial growth and sporulation.[Conclusions]It is recommended that BLEDA and PDA should be incubated at 28℃for 14 d in the dark for the purpose of mycelial growth and sporulation of ***,respectively.

关键词： Cavendish banana Freckle disease Phyllosticta capitalensis Mycelial growth Sporulation

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QTL mapping of adult plant resistance to stripe rust and leaf rust in a Fuyu 3/Zhengzhou 5389 wheat population

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The Crop Journal 2020年第4期8卷 655-665页

作者： Takele Weldu Gebrewahid Peipei Zhang Yue Zhou Xiaocui Yan Xianchun Xia Zhonghu He Daqun Liu Zaifeng Li Department of plant Pathology College of Plant ProtectionHebei Agricultural UniversityBiological Control Center for Plant Diseases and Plant Pests of HebeiBaoding 071001HebeiChina college of Agriculture Aksum University-Shire CampusTigrayEthiopia Baoding University Baoding 071001HebeiChina Institute of Crop Sciences National Wheat Improvement CenterChinese Academy of Agricultural SciencesBeijing 100081China International Maize and Wheat Improvement center(CIMMYT)China Office c/o CAASBeijing 100081China

Stripe or yellow rust(YR)and leaf rust(LR)cause large losses in wheat production *** cultivars curtail the levels of *** present study aimed to identify quantitative trait loci(QTL)for YR and LR resistance in 147 F2:6 recombinant inbred lines(RIL)derived from the cross Fuyu 3/Zhengzhou *** RIL population and parents were genotyped with the Wheat55 K single nucleotide polymorphism(SNP)array and simple sequence repeat(SSR)*** materials were also phenotyped for YR severity at Mianyang in Sichuan province and Baoding in hebei province in the 2015/2016,2016/2017,and 2017/2018 cropping seasons,and LR severity at Zhoukou in Henan province and at Baoding in 2017/*** QTL for YR resistance and five for LR resistance were detected using inclusive composite interval mapping(Ici Mapping).Four of these QTL on chromosomes 1 BL,2 BS,3 AL,and 5 AL conferred resistance to both YR and *** QTL on 1 BL was Lr46/Yr29,and that on 7 BL might be *** QTL on chromosome 2 BS was detected at a similar position to previously detected ***-3 AL/***-3 AL,***-5 AL/***-5 AL,***-7 DL,***-4 BS,***-6 DL,and ***-2 AS are likely to be *** SSR marker for ***-7 DL was developed and validated in a diverse wheat panel from China,suggesting effectiveness in different genetic *** QTL with closely linked SNP and SSR markers could be useful for marker-assisted selection in wheat breeding programs targeting durable resistance to both diseases.

关键词： mapping wheat breeding

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Puccinia triticina effector protein Pt_21 interacts with wheat thaumatin-like protein TaTLP1 to inhibit its antifungal activity and suppress wheat apoplast immunity

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作物学报:英文版 2023年第5期11卷 1431-1440页

作者： Fei Wang Songsong Shen Zhongchi Cui Shitao Yuan Ping Qu Hui Jia Linshuo Meng Xiaoyu Hao Daqun Liu Lisong Ma Haiyan Wang college of plant protection Hebei Agricultural University/Technological Innovation Center for Biological Control of Crop Diseases and Insect Pests of Hebei ProvinceBaoding 071001HebeiChina center of Agriculture Through Science and Education Hebei Agricultural UniversityBaoding 071001HebeiChina The State Key Laboratory of North China Crop Improvement and Regulation Hebei Agricultural UniversityBaoding 071001HebeiChina

Puccinia triticina(Pt), as the causal agent of wheat leaf rust, employs a plethora of effector proteins to modulate wheat immunity for successful colonization. Understanding the molecular mechanisms underlying Pt effector-mediated wheat susceptibility remains largely unexplored. In this study, an effector Pt_21 was identified to interact with the apoplast-localized wheat thaumatin-like protein TaTLP1 using a yeast two-hybrid assay and the Pt_21-TaTLP1 interaction was characterized. The interaction between Pt_21 and TaTLP1 was validated by in vivo co-immunoprecipitation assay. A TaTLP1 variant,TaTLP1C71A, that was identified by the site-directed mutagenesis failed to interact with Pt_21. Pt_21was able to suppress Bax-mediated cell death in leaves of Nicotiana benthamiana and inhibit TaTLP1-mediated antifungal activity. Furthermore, infiltration of recombinant protein Pt_21 into leaves of transgenic wheat line overexpressing TaTLP1 enhanced the disease development of leaf rust compared to that in wild-type leaves. These findings demonstrate that Pt_21 suppresses host defense response by directly targeting wheat TaTLP1 and inhibiting its antifungal activity, which broadens our understanding of the molecular mechanisms underlying Pt effector-mediated susceptibility in wheat.

关键词： Wheat Puccinia triticina Effector Thaumatin-like protein Anitifungal activity

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