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| 1 | Xa1 Allelic R Genes Activate Rice Blight Resistance Suppressed by Interfering TAL Effectors显示文摘Xanthomonas oryzae pathovar oryzae(Xoo)uses transcription activator-like effectors(TALEs)to cause bacterial blight(BB)in rice.In turn,rice has evolved several mechanisms to resist BB by targeting TALEs.One mechanism involves the nucleotide-binding leucine-rich repeat(NLR)resistance gene Xa1 and TALEs.Reciprocally,Xoo has evolved TALE variants,C-terminally truncated versions(interfering TALEs or iTALEs),to overcome Xa1 resistance.However,it remains unknown to what extent the two co-adaptive mechanisms mediate Xoo–rice interactions.In this study,we cloned and characterized five additional Xa1 allelic R genes,Xa2,Xa31(t),Xa14,CGS-Xo111,and Xa45(t)from a collection of rice accessions.Sequence analysis revealed that Xa2 and Xa31(t)from different rice cultivars are identical.These genes and their predicted proteins were found to be highly conserved,forming a group of Xa1 alleles.The XA1 alleles could be distinguished by the number of C-terminal tandemrepeats consisting of 93 amino acid residues and ranged from four in XA14 to seven in XA45(t).Xa1 allelic genes were identified in the 3000 rice genomes surveyed.On the other hand,iTALEs could suppress the resistance mediated by Xa1 allelic R genes,and iTALE genes were prevalent(95%)in Asian,but not in African Xoo strains.Our findings demonstrate the prominence of a defense mechanism in which rice depends on Xa1 alleles and a counteracting mechanismin which Xoo relies on iTALEs for BB. | Chonghui Ji Zhiyuan Ji Bo Liu He Cheng Hua Liu Sanzhen Liu Bing Yang Gongyou Chen | 2020 | Plant Communications2020，1，4： | 14 |
| 2 | Histone Lysine Methyltransferase SDG8 Is Involved in Brassinosteroid-Regulated Gene Expression in Arabidopsis thaliana显示文摘植物类固醇荷尔蒙, brassinosteroids (BR ) ,在植物生长,开发,和对 environmentalstresses 的回答起重要作用。BR 通过对血浆膜和另外的发信号的部件局部性的受体发信号调整抄写因素的 BES1/BZR1family,它调制几千基因的表示。BES1/BZR1 和他们的 interactingproteins 怎么工作调整基因的大数字,完全没被理解。这里,我们报导那 histone lysinemethyltransferase SDG8,在 histone 含有 3 离氨酸 36 di- 和 trimethylation (H3K36me2 和 me3 ) ,涉及 BR-regulatedgene 表示。BES1 与 SDG8 交往,直接或间接地通过 IWS1,抄写延伸因素 involvedin 调整 BR 的基因表示。猛烈变异的 sdg8 与损害 BR 回答显示减少的生长显型。全球基因表示研究表明了那, whileBR 在野类型的植物调整大约 5000 基因,荷尔蒙在 sdg8 比 700 基因调整少数变异。另外,多于调整 BR 的基因的一半,差别在 sdg8 异种被影响。一个染色质 Immunoprecipitation (薄片) 实验证明 H3K36me3 在 sdg8 异种在调整 BR 的基因被减少。把结果基于这些,我们建议 SDG8 在调停起一个必要作用调整 BR 的基因表示。Ourresults 因此揭示 histone 修正由支配基因 expression.Key 词的神经质的规定的主要机制: | Xiaolei Wang Jiani Chen Zhouli Xie Sanzhen Liu Trevor Nolan Huaxun Ye Mingcai Zhang Hongqing Guo Patrick S. Schnable Zhaohu Li Yanhai Yin | 2014 | Molecular Plant2014，7，8： | 3 |
| 3 | HB-PLS:A statistical method for identifying biological process or pathway regulators by integrating Huber loss and Berhu penalty with partial least squares regression显示文摘Gene expression data features high dimensionality,multicollinearity,and non-Gaussian distribution noise,posing hurdles for identification of true regulatory genes controlling a biological process or pathway.In this study,we integrated the Huber loss function and the Berhu penalty(HB)into partial least squares(PLS)framework to deal with the high dimension and multicollinearity property of gene expression data,and developed a new method called HB-PLS regression to model the relationships between regulatory genes and pathway genes.To solve the Huber-Berhu optimization problem,an accelerated proximal gradient descent algorithm with at least 10 times faster than the general convex optimization solver(CVX),was developed.Application of HB-PLS to recognize pathway regulators of lignin biosynthesis and photosynthesis in Arabidopsis thaliana led to the identification of many known positive pathway regulators that had previously been experimentally validated.As compared to sparse partial least squares(SPLS)regression,an efficient method for variable selection and dimension reduction in handling multicollinearity,HB-PLS has higher efficacy in identifying more positive known regulators,a much higher but slightly less sensitivity/(1-specificity)in ranking the true positive known regulators to the top of the output regulatory gene lists for the two aforementioned pathways.In addition,each method could identify some unique regulators that cannot be identified by the other methods.Our results showed that the overall performance of HB-PLS slightly exceeds that of SPLS but both methods are instrumental for identifying real pathway regulators from high-throughput gene expression data,suggesting that integration of statistics,machine leaning and convex optimization can result in a method with high efficacy and is worth further exploration. | Wenping Deng Kui Zhang Cheng He Sanzhen Liu Hairong Wei | 2021 | Forestry Research2021，1，1： | 1 |
| 4 | A problem on rough parametie Mareinkiewiez funetions 显示文摘 | Ding Yong Lu Sanzhen Yabuta K | 2002 | J Austral Math Soe2002，72，： | 1 |
| 5 | Gene targeting by the TAL effector PthXo2 reveals cryptic resistance gene for bacterial blight of rice显示文摘 | Junhui Zhou Zhao Peng Juying Long Davide Sosso Bo Liu Joon‐Seob Eom Sheng Huang Sanzhen Liu Casiana Vera Cruz Wolf B. Frommer Frank F. White Bing Yang | 2015 | Plant J2015，，4： | 1 |
| 6 | Regulation of regeneration in Arabidopsis thaliana显示文摘We employed several algorithms with high efficacy to analyze the public transcriptomic data,aiming to identify key transcription factors(TFs)that regulate regeneration in Arabidopsis thaliana.Initially,we utilized CollaborativeNet,also known as TF-Cluster,to construct a collaborative network of all TFs,which was subsequently decomposed into many subnetworks using the Triple-Link and Compound Spring Embedder(CoSE)algorithms.Functional analysis of these subnetworks led to the identification of nine subnetworks closely associated with regeneration.We further applied principal component analysis and gene ontology(GO)enrichment analysis to reduce the subnetworks from nine to three,namely subnetworks 1,12,and 17.Searching for TF-binding sites in the promoters of the co-expressed and co-regulated(CCGs)genes of all TFs in these three subnetworks and Triple-Gene Mutual Interaction analysis of TFs in these three subnetworks with the CCGs involved in regeneration enabled us to rank the TFs in each subnetwork.Finally,six potential candidate TFs-WOx9A,LEC2,PGA37,WIP5,PEI1,and AIL1 from subnetwork 1-were identified,and their roles in somatic embryogenesis(GO:0010262)and regeneration(GO:0031099)were discussed,so were the TFs in Subnetwork 12 and 17 associated with regeneration.The TFs identified were also assessed using the CIS-BP database and Expression Atlas.Our analyses suggest some novel TFs that may have regulatory roles in regeneration and embryogenesis and provide valuable data and insights into the regulatory mechanisms related to regeneration.The tools and the procedures used here are instrumental for analyzing high-throughput transcriptomic data and advancing our understanding of the regulation of various biological processes of interest. | Md Khairul Islam Sai Teja Mummadi Sanzhen Liu Hairong Wei | 2023 | aBIOTECH2023，4，4： | 0 |
| 7 | Discussion on the Effectiveness of Educational Reward显示文摘The psychological mechanism of reward is to form operational conditioned reflex through positive reinforcement and negative reinforcement.The positive effect of reward is to strengthen external learning motivation,and reward can sometimes improve creativity.The negative effects are:weakening students'creativity,weakening the internal motivation of learning and hindering the development of autonomy.Teachers should apply educational rewards scientifically,take care of their age,consider the difficulty of tasks,pay attention to stimulating students'internal motivation,and give priority to spiritual rewards,supplemented by material rewards. | Sanzhen Xu | 2021 | Journal of Contemporary Educational Research2021，5，2： | 0 |
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