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学者姓名：郑璐平
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Abstract ：
Advancements in high-throughput sequencing and associated bioinformatics methods have significantly expanded the RNA virus repertoire, including novel viruses with highly divergent genomes encoding "orphan" proteins that apparently lack homologous sequences. This absence of homologs in routine sequence similarity search complicates their taxonomic classification and raises a fundamental question: Do these orphan viral genomes represent bona ide viruses? In 2022, an orphan viral genome encoding a large polyprotein was identified in alfalfa (Medicago sativa) and thrips (Frankliniella occidentalis), and named Snake River alfalfa virus (SRAV). SRAV was initially proposed as an uncommon flavi-like virus identified in a plant host distantly related to family Flaviviridae. Subsequently, another research group showed its common occurrence in alfalfa but challenged its taxonomic position, suggesting it belongs to the family Endornaviridae. In this study, a large-scale analysis of 77 publicly available small RNA datasets indicates that SRAV could be detected across various tissues and cultivars of alfalfa, and has a broad geographical distribution. Moreover, profiles of the SRAV-derived small interfering RNAs (vsiRNAs) exhibited typical characteristics of viruses in plant hosts. The evolutionary analysis suggests that SRAV represents a unique class of plant-hosted flavi-like viruses with an unusual genome organization and evolutionary status, distinct from previously identified flavi-like viruses documented to infect plants. The latter shows a close evolutionary relationship to flavi-like viruses primarily found in plant-feeding invertebrates and lacks evidence of triggering host RNA interference (RNAi) responses so far. Moreover, mining the transcriptome shotgun assembly (TSA) database identified two novel viral sequences with a similar genome organization and evolutionary status to SRAV. In summary, our study resolves the disagreement regarding the taxonomic status of SRAV and suggests the potential existence of two distinct clades of plant-hosted flavi-like viruses with independent evolutionary origins. Furthermore, our research provides the first evidence of plant-hosted flavi-like viruses triggering the host's RNAi antiviral response. The widespread occurrence of SRAV underscores its potential ecological significance in alfalfa, a crop of substantial economic importance.
Keyword ：
endornaviridae endornaviridae flavi-like virus flavi-like virus flaviviridae flaviviridae Snake River Alfalfa virus Snake River Alfalfa virus
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| GB/T 7714 | Xu, Zhongtian , Zheng, Luping , Gao, Fangluan et al. An orphan viral genome with unclear evolutionary status sheds light on a distinct lineage of flavi-like viruses infecting plants [J]. | VIRUS EVOLUTION , 2025 , 11 (1) . |
| MLA | Xu, Zhongtian et al. "An orphan viral genome with unclear evolutionary status sheds light on a distinct lineage of flavi-like viruses infecting plants" . | VIRUS EVOLUTION 11 . 1 (2025) . |
| APA | Xu, Zhongtian , Zheng, Luping , Gao, Fangluan , Li, Yiyuan , Sun, Zongtao , Chen, Jianping et al. An orphan viral genome with unclear evolutionary status sheds light on a distinct lineage of flavi-like viruses infecting plants . | VIRUS EVOLUTION , 2025 , 11 (1) . |
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【目的】利用逆转录重组酶介导的核酸等温扩增技术（reverse transcriptase recombinase-aided amplification,RT-RAA）结合CRISPR/Cas12a系统，建立李属坏死环斑病毒（prunus necrotic ringspot virus,PNRSV）的RT-RAA-CRISPR/Cas12a可视化检测方法。【方法】依据PNRSV外壳蛋白（coat protein,CP）编码基因的保守序列，设计并筛选扩增效率高、特异性强的引物；针对引物和探针的浓度、扩增体系、反应温度和时间等条件进行优化，建立PNRSV的RT-RAA-CRISPR/Cas12a可视化检测方法。利用该方法对PNRSV、李痘病毒（plum pox virus,PPV）、苹果花叶病毒（apple mosaic virus,ApMV）、黄瓜花叶病毒（cucumber mosaic virus,CMV）、马铃薯X病毒（potato virus X,PVX）、马铃薯Y病毒（potato virus Y,PVY）等李属植物常见病毒进行检测，验证方法的特异性；将PNRSV的总RNA进行10倍梯度稀释，分别采用RT-PCR、RT-RAA以及RT-RAA-CRISPR/Cas12a方法进行检测，比较3种方法的灵敏度；对口岸收集的31份疑似感染病毒的桃果实试验样品进行RT-RAA-CRISPR/Cas12a和RT-PCR方法检测，验证该可视化检测方法的实用性。【结果】成功建立了用于检测PNRSV的RT-RAA-CRISPR/Cas12a可视化检测方法。最终体系优化结果为引物RT-RAA-PNRSV-F2/R2、荧光报告基因FQ、CRISPR-Cas12a、PNRSV-crRNA（CRISPR RNA,crRNA）的工作浓度分别为0.4μmol·L
Keyword ：
CRISPR/Cas12a CRISPR/Cas12a RT-RAA RT-RAA 可视化检测 可视化检测 李属坏死环斑病毒 李属坏死环斑病毒
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| GB/T 7714 | 张晓琪 , 沈建国 , 廖富荣 et al. 李属坏死环斑病毒RT-RAA-CRISPR/Cas12a可视化检测方法的建立与应用 [J]. | 中国农业科学 , 2025 , 58 (12) : 2371-2381 . |
| MLA | 张晓琪 et al. "李属坏死环斑病毒RT-RAA-CRISPR/Cas12a可视化检测方法的建立与应用" . | 中国农业科学 58 . 12 (2025) : 2371-2381 . |
| APA | 张晓琪 , 沈建国 , 廖富荣 , 李为民 , 金雨洁 , 沙依旦·吾甫尔 et al. 李属坏死环斑病毒RT-RAA-CRISPR/Cas12a可视化检测方法的建立与应用 . | 中国农业科学 , 2025 , 58 (12) , 2371-2381 . |
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玉蜀黍平脐蠕孢Bipolaris maydis引起的玉米小斑病近年来在福建玉米种植区蔓延为害。为获得对该病害具有良好防效的生防菌株，本研究采用平板稀释法从玉米根际土壤分离拮抗细菌，采用平板对峙法测定不同分离菌株的抑菌活性，筛选拮抗效果良好的菌株进行种类鉴定及抑菌谱和盆栽防效测定。结果表明，从土壤分离获得25株单孢菌株，初筛出3株对玉蜀黍平脐蠕孢具有明显抑制作用的菌株，其中菌株BV-3的抑制带宽最大，达18.04 mm；经形态学、生理生化特征和16S rDNA基因系统发育分析，确认菌株BV-3为贝莱斯芽孢杆菌Bacillus velezensis。该菌株抑菌谱广，对玉米叶斑病5种病原真菌均有良好的抑制作用。盆栽试验结果表明，菌株BV-3发酵液对抗病品种‘新中玉801’和感病品种‘闽甜986’的玉米小斑病7～14 d防效分别达73.72%～92.00%和68.27%～84.62%。可见，贝莱斯芽孢杆菌BV-3可有效防治玉米小斑病，具有良好的生防应用前景。
Keyword ：
玉米小斑病 玉米小斑病 生物防治 生物防治 筛选鉴定 筛选鉴定 贝莱斯芽孢杆菌 贝莱斯芽孢杆菌
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| GB/T 7714 | 吴梦菁 , 黄鹏 , 张杰 et al. 贝莱斯芽孢杆菌BV-3的鉴定及其对玉米小斑病的防效 [J]. | 中国生物防治学报 , 2025 , 41 (04) : 887-894 . |
| MLA | 吴梦菁 et al. "贝莱斯芽孢杆菌BV-3的鉴定及其对玉米小斑病的防效" . | 中国生物防治学报 41 . 04 (2025) : 887-894 . |
| APA | 吴梦菁 , 黄鹏 , 张杰 , 郑璐平 , 余德亿 , 林胜 et al. 贝莱斯芽孢杆菌BV-3的鉴定及其对玉米小斑病的防效 . | 中国生物防治学报 , 2025 , 41 (04) , 887-894 . |
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A novel macluravirus, designated provisionally as "kaempferia virus A" (KVA), was identified in sand ginger (Kaempferia galanga) by reverse transcription polymerase chain reaction (RT-PCR). The complete genome of this virus is 8,274 nucleotides in length, excluding the poly(A) tail. Its genome organization is typical of members of the genus Macluravirus, with a single large open reading frame (ORF) that encodes a polyprotein of 2,636 amino acids that is predicted to be processed into nine mature proteins. Comparative sequence analysis revealed that KVA shares 55-70% nucleotide sequence identity across the genome, as well as 49-77% and 42-68% amino acid sequence identity in the polyprotein and coat protein (CP), respectively, with the other reported macluraviruses. Phylogenetic analysis based on nucleotide sequences of the ORF showed that KVA was most closely related to and placed in the same clade with members of genus Macluravirus. The results indicate that KVA represents a new species of the genus Macluravirus in the family Potyviridae. To our knowledge, this is the first report of a plant virus infecting Kaempferia species.
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| GB/T 7714 | Zhang, Shiwei , Liao, Furong , Hong, Jun et al. Molecular characterization of a proposed novel macluravirus identified in sand ginger (Kaempferia galanga) [J]. | ARCHIVES OF VIROLOGY , 2025 , 170 (11) . |
| MLA | Zhang, Shiwei et al. "Molecular characterization of a proposed novel macluravirus identified in sand ginger (Kaempferia galanga)" . | ARCHIVES OF VIROLOGY 170 . 11 (2025) . |
| APA | Zhang, Shiwei , Liao, Furong , Hong, Jun , Huang, Pengying , Ye, Minghui , Fang, Zhipeng et al. Molecular characterization of a proposed novel macluravirus identified in sand ginger (Kaempferia galanga) . | ARCHIVES OF VIROLOGY , 2025 , 170 (11) . |
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Chinese bayberry (Myrica rubra) is an economically significant fruit tree native to eastern Asia and widely planted in south-central China. However, studies about the viruses infecting M. rubra remain largely lacking. In the present study, we employed the metatranscriptomic method to identify viruses in M. rubra leaves exhibiting yellowing and irregular margin symptoms collected in Fuzhou, a city located in China's Fujian province in the year 2022. As a consequence, a novel member of the genus Totivirus was identified and tentatively named "Myrica rubra associated totivirus 1" (MRaTV1). The genome sequencing of MRaTV1 was determined by overlapping reverse transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA ends (RACE). The two deduced proteins encoded by MRaTV1 have the highest amino acid (aa) sequence identity to the coat protein (CP) and RNA-dependent RNA polymerase (RdRP) of Panax notoginseng virus A (PNVA), a member of the genus Totivirus within the family Totiviridae, at 49.7% and 61.7%, respectively. According to the results of the phylogenetic tree and the species demarcation criteria of the International Committee on Taxonomy of Viruses (ICTV) for the genus Totivirus, MRaTV1 is considered a new member of the genus Totivirus.
Keyword ：
Myrica rubra Myrica rubra totivirus totivirus virome virome
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| GB/T 7714 | Xu, Zhongtian , Gao, Yi'nan , Teng, Kun et al. Identification and Genome Characterization of a Novel Virus within the Genus Totivirus from Chinese Bayberry (Myrica rubra) [J]. | VIRUSES-BASEL , 2024 , 16 (2) . |
| MLA | Xu, Zhongtian et al. "Identification and Genome Characterization of a Novel Virus within the Genus Totivirus from Chinese Bayberry (Myrica rubra)" . | VIRUSES-BASEL 16 . 2 (2024) . |
| APA | Xu, Zhongtian , Gao, Yi'nan , Teng, Kun , Ge, Huoyang , Zhang, Xiaoqi , Wu, Mengjing et al. Identification and Genome Characterization of a Novel Virus within the Genus Totivirus from Chinese Bayberry (Myrica rubra) . | VIRUSES-BASEL , 2024 , 16 (2) . |
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Rice stripe disease caused by the rice stripe virus (RSV), which infects many Poaceae species in nature, is one of the most devastating plant viruses in rice that causes enormous losses in production. Ailanthone is one of the typical C20 quassinoids synthesized by the secondary metabolism of Ailanthus altissima, which has been proven to be a biologically active natural product with promising prospects and great potential for use as a lead structure for pesticide development. Based on the achievement of the systemic infection and replication of RSV in Nicotiana benthamiana plants and rice protoplasts, the antiviral properties of Ailanthone were investigated by determining its effects on viral-coding RNA gene expression using reverse transcription polymerase chain reaction, and Western blot analysis. Ailanthone exhibited a dose-dependent inhibitory effect on RSV NSvc3 expression in the assay in both virus-infected tobacco plants and rice protoplasts. Further efforts revealed a potent inhibitory effect of Ailanthone on the expression of seven RSV protein-encoding genes, among which NS3, NSvc3, NS4, and NSvc4 are the most affected genes. These facts promoted an extended and greater depth of understanding of the antiviral nature of Ailanthone against plant viruses, in addition to the limited knowledge of its anti-tobacco mosaic virus properties. Moreover, the leaf disc method introduced and developed in the study for the detection of the antiviral activity of Ailanthone facilitates an available and convenient screening method for anti-RSV natural products or synthetic chemicals.
Keyword ：
ailanthone ailanthone coat protein coat protein in vivo antiviral in vivo antiviral movement protein movement protein quassinoid quassinoid rice stripe virus rice stripe virus
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| GB/T 7714 | Tan, Qingwei , Zhu, Jianxuan , Ju, Yuanyuan et al. Antiviral Activity of Ailanthone from Ailanthus altissima on the Rice Stripe Virus [J]. | VIRUSES-BASEL , 2024 , 16 (1) . |
| MLA | Tan, Qingwei et al. "Antiviral Activity of Ailanthone from Ailanthus altissima on the Rice Stripe Virus" . | VIRUSES-BASEL 16 . 1 (2024) . |
| APA | Tan, Qingwei , Zhu, Jianxuan , Ju, Yuanyuan , Chi, Xinlin , Cao, Tangdan , Zheng, Luping et al. Antiviral Activity of Ailanthone from Ailanthus altissima on the Rice Stripe Virus . | VIRUSES-BASEL , 2024 , 16 (1) . |
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Programmed cell death (PCD) in animals mainly refers to lytic and non-lytic forms. Disruption and integrity of the plasma membrane are considered as hallmarks of lytic and apoptotic cell death, respectively. These lytic cell death programs can prevent the hosts from microbial pathogens. The key to our understanding of these cases is pattern recognition receptors, such as TLRs in animals and LRR-RLKs in plants, and nod-like receptors (NLRs). Herein, we emphatically discuss the biochemical and structural studies that have clarified the anti-apoptotic and pro-apoptotic functions of Bcl-2 family proteins during intrinsic apoptosis and how caspase-8 among apoptosis, necroptosis, and pyroptosis sets the switchable threshold and integrates innate immune signaling, and that have compared the similarity and distinctness of the apoptosome, necroptosome, and inflammasome. We recapitulate that the necroptotic MLKL pore, pyroptotic gasdermin pore, HR-inducing resistosome, and mitochondrial Bcl-2 family all can form ion channels, which all directly boost membrane disruption. Comparing the conservation and unique aspects of PCD including ferrroptosis among bacteria, animals, and plants, the commonly shared immune domains including TIR-like, gasdermin-like, caspase-like, and MLKL/CC-like domains act as arsenal modules to restructure the diverse architecture to commit PCD suicide upon stresses/stimuli for host community.
Keyword ：
apoptosis apoptosis bacterial PCD bacterial PCD ferroptosis ferroptosis hypersensitive cell death response hypersensitive cell death response necroptosis necroptosis pyroptosis pyroptosis
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| GB/T 7714 | Zhuang, Jun , Xie, Li , Zheng, Luping . A Glimpse of Programmed Cell Death Among Bacteria, Animals, and Plants [J]. | FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY , 2022 , 9 . |
| MLA | Zhuang, Jun et al. "A Glimpse of Programmed Cell Death Among Bacteria, Animals, and Plants" . | FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY 9 (2022) . |
| APA | Zhuang, Jun , Xie, Li , Zheng, Luping . A Glimpse of Programmed Cell Death Among Bacteria, Animals, and Plants . | FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY , 2022 , 9 . |
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Climate change is considered a major threat to society and nature. UV irradiation is the most important environmental genotoxic agent. Thus, how elevated UV irradiation may influence human health and ecosystems has generated wide concern in the scientific community, as well as with policy makers and the public in general. In this study, we investigated patterns and mechanisms of UV adaptation in natural ecosystems by studying a gene-specific variation in the potato late blight pathogen, Phytophthora infestans. We compared the sequence characteristics of radiation sensitive 23 (RAD23), a gene involved in the nucleotide excision repair (NER) pathway and UV tolerance, in P. infestans isolates sampled from various altitudes. We found that lower genetic variation in the RAD23 gene was caused by natural selection. The hypothesis that UV irradiation drives this selection was supported by strong correlations between the genomic characteristics and altitudinal origin (historic UV irradiation) of the RAD23 sequences with UV tolerance of the P. infestans isolates. These results indicate that the RAD23 gene plays an important role in the adaptation of P. infestans to UV stress. We also found that different climatic factors could work synergistically to determine the evolutionary adaptation of species, making the influence of climate change on ecological functions and resilience more difficult to predict. Future attention should aim at understanding the collective impact generated by simultaneous change in several climate factors on species adaptation and ecological sustainability, using state of the art technologies such as experimental evolution, genome-wide scanning, and proteomics.
Keyword ：
climate change climate change DNA repair gene DNA repair gene ecological sustainability ecological sustainability population genomics population genomics purifying selection purifying selection UV adaptation UV adaptation
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| GB/T 7714 | Wang, Yan-Ping , Waheed, Abdul , Liu, Shi-Ting et al. Altitudinal Heterogeneity of UV Adaptation in Phytophthora infestans Is Associated with the Spatial Distribution of a DNA Repair Gene [J]. | JOURNAL OF FUNGI , 2021 , 7 (4) . |
| MLA | Wang, Yan-Ping et al. "Altitudinal Heterogeneity of UV Adaptation in Phytophthora infestans Is Associated with the Spatial Distribution of a DNA Repair Gene" . | JOURNAL OF FUNGI 7 . 4 (2021) . |
| APA | Wang, Yan-Ping , Waheed, Abdul , Liu, Shi-Ting , Li, Wen-Yang , Nkurikiyimfura, Oswald , Lurwanu, Yahuza et al. Altitudinal Heterogeneity of UV Adaptation in Phytophthora infestans Is Associated with the Spatial Distribution of a DNA Repair Gene . | JOURNAL OF FUNGI , 2021 , 7 (4) . |
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水稻条纹病毒(Rice stripe virus,RSV)编码的p2蛋白能与纤维蛋白互作并协助病毒系统运动。纤维蛋白定位在核仁和柯浩体上,作为柯浩体指示蛋白的coilin也参与病毒侵染过程。本文通过亚细胞共定位和双荧光互补实验证明p2与本氏烟柯浩体蛋白Nbcoilin互作;病毒诱导基因沉默技术瞬时沉默基因Nbcoilin后不影响植株的生长发育和水稻条纹病毒的侵染。所获结果表明,Nbcoilin虽然能与p2互作,但不影响水稻条纹病毒的侵染。
Keyword ：
双荧光互补 双荧光互补 柯浩体 柯浩体 水稻条纹病毒 水稻条纹病毒 病毒诱导的基因沉默 病毒诱导的基因沉默
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| GB/T 7714 | 李阳 , 谢理 , 祝建烜 et al. 水稻条纹病毒p2与本氏烟柯浩体蛋白互作 [J]. | 病毒学报 , 2021 , 37 (06) : 1476-1483 . |
| MLA | 李阳 et al. "水稻条纹病毒p2与本氏烟柯浩体蛋白互作" . | 病毒学报 37 . 06 (2021) : 1476-1483 . |
| APA | 李阳 , 谢理 , 祝建烜 , 郑璐平 . 水稻条纹病毒p2与本氏烟柯浩体蛋白互作 . | 病毒学报 , 2021 , 37 (06) , 1476-1483 . |
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p2 ofrice stripe virusmay translocate from the nucleus to the cytoplasm and recruit nucleolar functions to promote virus systemic movement. Cajal bodies (CBs) are nuclear components associated with the nucleolus, which play a major role in plant virus infection. Coilin, a marker protein of CBs, is essential for CB formation and function. Coilin contains three domains, the N-terminal, the center, and the C-terminal fragments. Using yeast two-hybrid, colocalization, and bimolecular fluorescence complementation (BiFC) approaches, we show that p2 interacts with the full-length ofArabidopsis thalianacoilin (Atcoilin), the center and C-terminal domain of Atcoilin in the nucleus. Moreover, the N-terminal is indispensable for Atcoilin to interact with Cajal bodies.
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| GB/T 7714 | Zheng, Luping , Hong, Pengxiang , Guo, Xiaonan et al. Rice stripe virusp2 Colocalizes and Interacts with Arabidopsis Cajal Bodies and Its Domains in Plant Cells [J]. | BIOMED RESEARCH INTERNATIONAL , 2020 , 2020 . |
| MLA | Zheng, Luping et al. "Rice stripe virusp2 Colocalizes and Interacts with Arabidopsis Cajal Bodies and Its Domains in Plant Cells" . | BIOMED RESEARCH INTERNATIONAL 2020 (2020) . |
| APA | Zheng, Luping , Hong, Pengxiang , Guo, Xiaonan , Li, Yang , Xie, Li . Rice stripe virusp2 Colocalizes and Interacts with Arabidopsis Cajal Bodies and Its Domains in Plant Cells . | BIOMED RESEARCH INTERNATIONAL , 2020 , 2020 . |
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