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学者姓名：陈华
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Abstract ：
The TEOSINTE-BRANCHED1/CYCLOIDEA/PROLIFERATING-CELL-FACTOR (TCP) gene family, a plant-specific transcription factor family, plays pivotal roles in various processes such as plant growth and development regulation, hormone crosstalk, and stress responses. However, a comprehensive genome-wide identification and characterization of the TCP gene family in peanut has yet to be fully elucidated. In this study, we conducted a genome-wide search and identified 51 TCP genes (designated as AhTCPs) in peanut, unevenly distributed across 17 chromosomes. These AhTCPs were phylogenetically classified into three subclasses: PCF, CIN, and CYC/TB1. Gene structure analysis of the AhTCPs revealed that most AhTCPs within the same subclade exhibited conserved motifs and domains, as well as similar gene structures. Cis-acting element analysis demonstrated that the AhTCP genes harbored numerous cis-acting elements associated with stress response, plant growth and development, plant hormone response, and light response. Intraspecific collinearity analysis unveiled significant collinear relationships among 32 pairs of these genes. Further collinear evolutionary analysis found that peanuts share 30 pairs, 24 pairs, 33 pairs, and 100 pairs of homologous genes with A. duranensis, A. ipaensis, Arabidopsis thaliana, and Glycine max, respectively. Moreover, we conducted a thorough analysis of the transcriptome expression profiles in peanuts across various tissues, under different hormone treatment conditions, in response to low- and high-calcium treatments, and under low-temperature and drought stress scenarios. The qRT-PCR results were in accordance with the transcriptome expression data. Collectively, these studies have established a solid theoretical foundation for further exploring the biological functions of the TCP gene family in peanuts, providing valuable insights into the regulatory mechanisms of plant growth, development, and stress responses.
Keyword ：
bioinformatics bioinformatics expression pattern analysis expression pattern analysis genome-wide identification genome-wide identification peanut peanut TCP gene TCP gene
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| GB/T 7714 | Zhu, Yanting , Niu, Sijie , Lin, Jingyi et al. Genome-Wide Identification and Expression Analysis of TCP Transcription Factors Responding to Multiple Stresses in Arachis hypogaea L. [J]. | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2025 , 26 (3) . |
| MLA | Zhu, Yanting et al. "Genome-Wide Identification and Expression Analysis of TCP Transcription Factors Responding to Multiple Stresses in Arachis hypogaea L." . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 26 . 3 (2025) . |
| APA | Zhu, Yanting , Niu, Sijie , Lin, Jingyi , Yang, Hua , Zhou, Xun , Wang, Siwei et al. Genome-Wide Identification and Expression Analysis of TCP Transcription Factors Responding to Multiple Stresses in Arachis hypogaea L. . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2025 , 26 (3) . |
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Bacterial wilt caused by Ralstonia solanacearum is a devastating disease affecting a great many crops including peanut. The pathogen damages plants via secreting type & SHcy; effector proteins (T3Es) into hosts for pathogenicity. Here, we characterized RipAU was among the most toxic effectors as Delta RipAU completely lost its pathogenicity to peanuts. A serine residue of RipAU is the critical site for cell death. The RipAU targeted a subtilisin-like protease (AhSBT1.7) in peanut and both protein moved into nucleus. Heterotic expression of AhSBT1.7 in transgenic tobacco and Arabidopsis thaliana significantly improved the resistance to R. solanacearum. The enhanced resistance was linked with the upregulating ERF1 defense marker genes and decreasing pectin methylesterase (PME) activity like PME2&4 in cell wall pathways. The RipAU played toxic effect by repressing R-gene, defense hormone signaling, and AhSBTs metabolic pathways but increasing PMEs expressions. Furthermore, we discovered AhSBT1.7 interacted with AhPME4 and was colocalized at nucleus. The AhPME speeded plants susceptibility to pathogen via mediated cell wall degradation, which inhibited by AhSBT1.7 but upregulated by RipAU. Collectively, RipAU impaired AhSBT1.7 defense for pathogenicity by using PME-mediated cell wall degradation. This study reveals the mechanism of RipAU pathogenicity and AhSBT1.7 resistance, highlighting peanut immunity to bacterial wilt for future improvement.
Keyword ：
AhPME4 AhPME4 AhSBT1.7 AhSBT1.7 pathogenicity pathogenicity peanut peanut Ralstonia solanacearum Ralstonia solanacearum RipAU RipAU
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| GB/T 7714 | Chen, Kun , Zhuang, Yuhui , Chen, Hua et al. A Ralstonia effector RipAU impairs peanut AhSBT1.7 immunity for pathogenicity via AhPME-mediated cell wall degradation [J]. | PLANT JOURNAL , 2025 , 121 (2) . |
| MLA | Chen, Kun et al. "A Ralstonia effector RipAU impairs peanut AhSBT1.7 immunity for pathogenicity via AhPME-mediated cell wall degradation" . | PLANT JOURNAL 121 . 2 (2025) . |
| APA | Chen, Kun , Zhuang, Yuhui , Chen, Hua , Lei, Taijie , Li, Mengke , Wang, Shanshan et al. A Ralstonia effector RipAU impairs peanut AhSBT1.7 immunity for pathogenicity via AhPME-mediated cell wall degradation . | PLANT JOURNAL , 2025 , 121 (2) . |
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Key messageIntegrating GAB methods with high-throughput phenotyping, genome editing, and speed breeding hold great potential in designing future smart peanut cultivars to meet market and food supply demands.AbstractCultivated peanut (Arachis hypogaea L.), a legume crop greatly valued for its nourishing food, cooking oil, and fodder, is extensively grown worldwide. Despite decades of classical breeding efforts, the actual on-farm yield of peanut remains below its potential productivity due to the complicated interplay of genotype, environment, and management factors, as well as their intricate interactions. Integrating modern genomics tools into crop breeding is necessary to fast-track breeding efficiency and rapid progress. When combined with speed breeding methods, this integration can substantially accelerate the breeding process, leading to faster access of improved varieties to farmers. Availability of high-quality reference genomes for wild diploid progenitors and cultivated peanuts has accelerated the process of gene/quantitative locus discovery, developing markers and genotyping assays as well as a few molecular breeding products with improved resistance and oil quality. The use of new breeding tools, e.g., genomic selection, haplotype-based breeding, speed breeding, high-throughput phenotyping, and genome editing, is probable to boost genetic gains in peanut. Moreover, renewed attention to efficient selection and exploitation of targeted genetic resources is also needed to design high-quality and high-yielding peanut cultivars with main adaptation attributes. In this context, the combination of genomics-assisted breeding (GAB), genome editing, and speed breeding hold great potential in designing future improved peanut cultivars to meet market and food supply demands.
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| GB/T 7714 | Raza, Ali , Chen, Hua , Zhang, Chong et al. Designing future peanut: the power of genomics-assisted breeding [J]. | THEORETICAL AND APPLIED GENETICS , 2024 , 137 (3) . |
| MLA | Raza, Ali et al. "Designing future peanut: the power of genomics-assisted breeding" . | THEORETICAL AND APPLIED GENETICS 137 . 3 (2024) . |
| APA | Raza, Ali , Chen, Hua , Zhang, Chong , Zhuang, Yuhui , Sharif, Yasir , Cai, Tiecheng et al. Designing future peanut: the power of genomics-assisted breeding . | THEORETICAL AND APPLIED GENETICS , 2024 , 137 (3) . |
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Alternative splicing (AS), an important post-transcriptional regulation mechanism in eukaryotes, can significantly increase transcript diversity and contribute to gene expression regulation and many other complicated developmental processes. While plant gene AS events are well described, few studies have investigated the comprehensive regulation machinery of plant AS. Here, we use multi-omics to analyse peanut AS events. Using long-read isoform sequencing, 146 464 full-length non-chimeric transcripts were obtained, resulting in annotation corrections for 1782 genes and the identification of 4653 new loci. Using Iso-Seq RNA sequences, 271 776 unique splice junctions were identified, 82.49% of which were supported by transcriptome data. We characterized 50 977 polyadenylation sites for 23 262 genes, 12 369 of which had alternative polyadenylation sites. AS allows differential regulation of the same gene by miRNAs at the isoform level coupled with polyadenylation. In addition, we identified many long non-coding RNAs and fusion transcripts. There is a suppressed effect of 6mA on AS and gene expression. By analysis of chromatin structures, the genes located in the boundaries of topologically associated domains, proximal chromosomal telomere regions, inter- or intra-chromosomal loops were found to have more unique splice isoforms, higher expression, lower 6mA and more transposable elements (TEs) in their gene bodies than the other genes, indicating that chromatin interaction, 6mA and TEs play important roles in AS and gene expression. These results greatly refine the peanut genome annotation and contribute to the study of gene expression and regulation in peanuts. This work also showed AS is associated with multiple strategies for gene regulation.
Keyword ：
6mA 6mA alternative splicing alternative splicing chromatin structures chromatin structures Iso-Seq Iso-Seq peanut peanut
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| GB/T 7714 | Wang, Lihui , Chen, Hua , Zhuang, Yuhui et al. Multiple strategies, including 6mA methylation, affecting plant alternative splicing in allopolyploid peanut [J]. | PLANT BIOTECHNOLOGY JOURNAL , 2024 , 22 (6) : 1681-1702 . |
| MLA | Wang, Lihui et al. "Multiple strategies, including 6mA methylation, affecting plant alternative splicing in allopolyploid peanut" . | PLANT BIOTECHNOLOGY JOURNAL 22 . 6 (2024) : 1681-1702 . |
| APA | Wang, Lihui , Chen, Hua , Zhuang, Yuhui , Chen, Kun , Zhang, Chong , Cai, Tiecheng et al. Multiple strategies, including 6mA methylation, affecting plant alternative splicing in allopolyploid peanut . | PLANT BIOTECHNOLOGY JOURNAL , 2024 , 22 (6) , 1681-1702 . |
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【目的】种子大小直接影响花生的产量。前期通过QTL定位获得调控花生种仁大小的关键转录因子AhSAP1，构建花生胚酵母双杂交cDNA文库，并以AhSAP1为诱饵进行酵母双杂交筛选互作蛋白，分析候选互作蛋白基因的时空表达特征，为深入研究AhSAP1调控花生种仁发育的分子机制奠定基础。【方法】用SMART(switching mechanism at 5′end of the RNA transcript)法构建花生胚大肠杆菌cDNA文库并进行鉴定；构建诱饵载体pGBKT7-AhSAP1，并鉴定其对酵母细胞的毒性以及自激活性。将花生胚cDNA文库质粒与诱饵质粒pGBKT7-AhSAP1共转Y2H Gold酵母菌株，筛选长势较好且呈蓝色的阳性菌落，测序比对，获得候选互作蛋白基因序列，预测生物学功能。利用RNA-seq明确候选互作蛋白基因在花生不同组织器官、受外源植物激素诱导及低钙胁迫诱导下的表达特征。根据功能注释结果，选取可能参与植物种子发育的候选因子，扩增其CDS全长序列，构建到靶标载体pGADT7后，分别与pGBKT7-AhSAP1共转化酵母细胞进行点对点酵母双杂交互作验证。【结果】花生胚大肠杆菌次级cDNA文库滴度为1.05×108 cfu/mL，重组率为98%，平均插入片段大小约1 000 bp，文库质量较高；成功构建酵母双杂交诱饵载体pGBKT7-AhSAP1，在酵母细胞中没有自激活性且对酵母菌没有毒性；筛选得到68个酵母阳性克隆，经序列相似性比对，去除重复，共获得60个候选互作蛋白，主要参与能量产生与代谢、翻译、核糖体结构和生物发育、转录、信号转导机制、翻译后修饰、无机离子运输和代谢、染色质结构等。选取12个候选互作蛋白与AhSAP1进行一对一酵母双杂交验证，有8个候选互作蛋白与AhSAP1发生互作。【结论】成功构建了花生胚发育不同时期的混合cDNA文库，筛选出60个与AhSAP1互作的候选互作蛋白，主要涉及能量产生与代谢、翻译、核糖体结构和生物发生、转录、信号转导机制、翻译后修饰、无机离子运输和代谢、染色质结构等，这些候选互作蛋白基因在花生根、茎、叶、花序、果针、果皮、种皮及胚中均有表达，明确了8个候选互作蛋白与AhSAP1的互作关系。
Keyword ：
AhSAP1 AhSAP1 互作蛋白 互作蛋白 种子大小 种子大小 花生 花生 酵母双杂交 酵母双杂交
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| GB/T 7714 | 朱艳婷 , 党浩 , 牛思杰 et al. 利用酵母双杂交系统筛选花生Ah SAP1的互作蛋白 [J]. | 中国农业科学 , 2024 , 57 (21) : 4376-4391 . |
| MLA | 朱艳婷 et al. "利用酵母双杂交系统筛选花生Ah SAP1的互作蛋白" . | 中国农业科学 57 . 21 (2024) : 4376-4391 . |
| APA | 朱艳婷 , 党浩 , 牛思杰 , 林婧怡 , 杨华 , 杨强 et al. 利用酵母双杂交系统筛选花生Ah SAP1的互作蛋白 . | 中国农业科学 , 2024 , 57 (21) , 4376-4391 . |
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Abstract ：
Cultivated peanut (Arachis hypogaea L.) is a key oil- and protein-providing legume crop of the world. It is full of nutrients, and its nutrient profile is comparable to that of other nuts. Peanut is a unique plant as it showcases a pegging phenomenon, producing flowers above ground, and after fertilization, the developing peg enters the soil and produces seeds underground. This geocarpic nature of peanut exposes its seeds to soil pathogens. Peanut seeds are protected by an inedible pericarp and testa. The pericarp- and testa-specific promoters can be effectively used to improve the seed defense. We identified a pericarp- and testa-abundant expression gene (AhN8DT-2) from available transcriptome expression data, whose tissue-specific expression was further confirmed by the qRT-PCR. The 1827bp promoter sequence was used to construct the expression vector using the pMDC164 vector for further analysis. Quantitative expression of the GUS gene in transgenic Arabidopsis plants showed its high expression in the pericarp. GUS staining showed a deep blue color in the pericarp and testa. Cryostat sectioning of stained Arabidopsis seeds showed that expression is only limited to seed coat (testa), and staining was not present in cotyledons and embryos. GUS staining was not detected in any other tissues, including seedlings, leaves, stems, and roots, except for some staining in flowers. Under different phytohormones, this promoter did not show an increase in expression level. These results indicated that the AhN8DT-2 promoter drives GUS gene expression in a pericarp- and testa-specific manner. The identified promoter can be utilized to drive disease resistance genes, specifically in the pericarp and testa, enhancing peanut seed defense against soil-borne pathogens. This approach has broader implications for improving the resilience of peanut crops and other legumes, contributing to sustainable agricultural practices and food security.
Keyword ：
abiotic stress abiotic stress aflatoxins aflatoxins constitutive promoter constitutive promoter genome-wide genome-wide tissue-specific promoter tissue-specific promoter
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| GB/T 7714 | Sharif, Yasir , Zhuang, Yuhui , Xie, Wenpin et al. Molecular Cloning and Functional Identification of a Pericarp- and Testa-Abundant Gene's (AhN8DT-2) Promoter from Arachis hypogaea [J]. | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2024 , 25 (14) . |
| MLA | Sharif, Yasir et al. "Molecular Cloning and Functional Identification of a Pericarp- and Testa-Abundant Gene's (AhN8DT-2) Promoter from Arachis hypogaea" . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 25 . 14 (2024) . |
| APA | Sharif, Yasir , Zhuang, Yuhui , Xie, Wenpin , Zhang, Chong , Chen, Kun , Deng, Ye et al. Molecular Cloning and Functional Identification of a Pericarp- and Testa-Abundant Gene's (AhN8DT-2) Promoter from Arachis hypogaea . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2024 , 25 (14) . |
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本发明公开了一种花生青枯菌RS‑P.362200中的效应蛋白RipTAL及其编码基因和应用，属于植物病理学与分子生物学研究领域。所述青枯菌效应蛋白RipTAL核苷酸序列如SEQ ID No.1所示，编码的氨基酸序列如SEQ ID No.2所示。利用同源重组法分别在野生型青枯菌RS‑P.362200中敲除RipTAL及其转录激活区AD，构建了青枯菌RipTAL缺失突变体ΔRipTAL及AD缺失突变体ΔRipTAL‑AD，将ΔRipTAL与ΔRipTAL‑AD接种花生表现致病力减弱，表明RipTAL是一个毒力因子，在花生与青枯菌互作中发挥重要作用，且AD区对RipTAL的致病力起着十分关键的作用。通过转基因本氏烟草株系与野生型植株分别接种青枯菌比较分析发现，RipTAL在本氏烟草中超量表达可显著提高烟草对青枯菌的抗性。本发明对于解析RipTAL介导的青枯菌‑花生互作机理及指导抗青枯病花生分子育种具有重要意义。
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| GB/T 7714 | 陈华 , 陆文智 , 林婧怡 et al. 一种花生青枯菌效应蛋白RipTAL及其在植物抗青枯病中的应用 : CN202311763214.X[P]. | 2023-12-20 . |
| MLA | 陈华 et al. "一种花生青枯菌效应蛋白RipTAL及其在植物抗青枯病中的应用" : CN202311763214.X. | 2023-12-20 . |
| APA | 陈华 , 陆文智 , 林婧怡 , 杨强 , 朱艳婷 , 杨欢 et al. 一种花生青枯菌效应蛋白RipTAL及其在植物抗青枯病中的应用 : CN202311763214.X. | 2023-12-20 . |
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本发明公开了一种烟草抗青枯病基因NtWRKY45及其在烟草抗青枯病中的应用，本方案申请基于前期烟草基因芯片数据筛选出的受青枯菌诱导上调表达的WRKY转录因子NtWRKY45，经过PCR克隆获得编码该蛋白的cDNA序列，通过基于Gateway系统的BP和LR反应构建CaMV 35S启动子驱动NtWRKY45基因植物表达载体p35S::NtWRKY45‑TAP，将其转化GV3101农杆菌，通过叶盘法将其导入感病烟草品种红花大金元上，对转基因烟草进行分子鉴定和青枯菌接种抗性鉴定，结果证明NtWRKY45可以正向调控烟草对青枯菌的抗性。本发明为利用基因工程手段培育抗青枯病烟草新品种提供了基因资源，具有重要的应用价值。
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| GB/T 7714 | 陈华 , 庄伟建 , 王帅印 et al. 一种烟草抗青枯病基因NtWRKY45及其在烟草抗青枯病中的应用 : CN202311770716.5[P]. | 2023-12-20 . |
| MLA | 陈华 et al. "一种烟草抗青枯病基因NtWRKY45及其在烟草抗青枯病中的应用" : CN202311770716.5. | 2023-12-20 . |
| APA | 陈华 , 庄伟建 , 王帅印 , 张冲 , 杨强 , 蔡铁城 et al. 一种烟草抗青枯病基因NtWRKY45及其在烟草抗青枯病中的应用 : CN202311770716.5. | 2023-12-20 . |
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本发明涉及植物基因工程技术领域，公开了一种烟草NBS‑LRR类抗病基因NtRRS5及其在烟草抗青枯病中的应用。该基因核苷酸序列如SEQ IDNo.1所示。通过Gateway系统构建CaMV 35S启动子驱动的过量表达载体经农杆菌介导转化感青枯病品种红花大金元，通过对转基因植株进行分子检测和青枯菌接种鉴定，其在烟草中超量表达可显著提高转基因烟草对青枯病的抗性，表明NtRRS5可能参与了植物对青枯病的抗性反应。本发明为利用基因工程手段培育抗青枯病烟草新品种提供了重要的基因资源，具有重要的应用前景。
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| GB/T 7714 | 杨强 , 巫升鑫 , 余文 et al. 一种烟草NBS-LRR类抗病基因NtRRS5及其在烟草抗青枯病中的应用 : CN202311763220.5[P]. | 2023-12-20 . |
| MLA | 杨强 et al. "一种烟草NBS-LRR类抗病基因NtRRS5及其在烟草抗青枯病中的应用" : CN202311763220.5. | 2023-12-20 . |
| APA | 杨强 , 巫升鑫 , 余文 , 查李 , 庄伟建 , 张冲 et al. 一种烟草NBS-LRR类抗病基因NtRRS5及其在烟草抗青枯病中的应用 : CN202311763220.5. | 2023-12-20 . |
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本研究从四倍体野生种花生中分离了Ty3-gypsy类反转录转座子的反转录酶(RT)基因序列，分析了其序列特点和差异，为研究其转录活性和功能奠定基础。根据Ty3-gypsy类反转录转座子RT基因的保守区设计简并引物，PCR扩增四倍体野生种花生(Arachis monticola)(PI468199)的DNA，目的条带经回收、克隆和测序后，进行生物信息学分析。结果显示，目的条带大小约为430 bp，共有29条AmRT2-X基因序列被分离出，这些序列长度变化范围为397～433 bp,AT所占比例范围为55.66%～65.97%，核苷酸序列间相似性在45.1%～97.2%之间，存在较高异质性；29条AmRT2-X基因序列被聚类划分为8个家族，家族A是包含序列最多的家族；翻译成氨基酸后，有10条AmRT2-X基因序列发生了无义突变；氨基酸序列间相似性在22.3%～98.6%之间，呈现高度异质性；绝大部分AmRT2-X基因序列的保守基序一致；系统进化树显示，所有RT基因序列被分为6类，其中，Ⅰ类包含20条AmRT2-X基因序列，Ⅱ类中的4条Am RT2-X基因序列与来自拟南芥、多花黑麦草、火龙果、牡丹、果梅、枣、山桑、白皮松等物种的序列之间亲缘关系较近；通过比对花生EST数据库，发现2条具有转录活性的四倍体野生种花生Ty3-gypsy类反转录转座子。本研究为Ty3-gypsy类反转录转座子全长序列的分离及其功能的研究提供一定基础。
Keyword ：
Ty3-gypsy类反转录转座子 Ty3-gypsy类反转录转座子 反转录酶 反转录酶 四倍体野生种 四倍体野生种 异质性 异质性 花生 花生
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| GB/T 7714 | 蔡铁城 , 张冲 , 刘菁 et al. 四倍体野生种花生Ty3-gypsy类反转录转座子RT基因的分离及序列分析 [J]. | 分子植物育种 , 2023 , 21 (21) : 6972-6981 . |
| MLA | 蔡铁城 et al. "四倍体野生种花生Ty3-gypsy类反转录转座子RT基因的分离及序列分析" . | 分子植物育种 21 . 21 (2023) : 6972-6981 . |
| APA | 蔡铁城 , 张冲 , 刘菁 , 阳太亿 , 陈华 , 蒋菁 et al. 四倍体野生种花生Ty3-gypsy类反转录转座子RT基因的分离及序列分析 . | 分子植物育种 , 2023 , 21 (21) , 6972-6981 . |
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