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学者姓名：廖丽娟
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Abstract ：
The timing of transplanting and topping significantly affects transcriptional expression, thereby influencing the metabolic and developmental processes of tobacco. The glycolysis pathway plays a central role in driving internal chemical changes that shape alterations in the tobacco's metabolic pathways. Transcriptome analysis revealed that early transplanting and topping treatments resulted in 4,534 differentially expressed genes. KEGG annotation identified 32 differentially expressed genes associated with glycolysis metabolism. Specifically, the aldehyde dehydrogenase (NAD(+)) (EC 1.2.1.3) pathway was significantly upregulated, whereas the fructose-bisphosphate aldolase (EC 4.1.2.13) was significantly downregulated. KEGG-GSEA gene set analysis indicated that early transplanting and topping enhanced expression of gene sets involved in glycolysis metabolism. Additionally, two core enrichment genes, KPYC-l and Gal-l, were identified as being involved in glycolysis metabolism. Across the glycolysis metabolic pathway, enzyme activities were predominantly downregulated before phosphoenolpyruvate and upregulated thereafter. This suggests that tobacco likely enhanced phosphoenolpyruvate production through increased activity in the pentose phosphate pathway and gluconeogenesis. These alterations promoted heightened metabolic pathways involving pyruvate, acetate, and acetyl-CoA. A newly identified gene, LOC107803480, belonging to the SCF family, was found to be enriched in glycolysis metabolism according to the KEGG database. This gene contains three conserved motifs: PS00184 (GARS), PS00337 (BETA_LACTAMASE_D), and PS10049 (PSI_RSU). In conclusion, transcriptional analysis and the discovery of novel genes suggest that early transplanting and topping significantly impacts the glycolysis pathway, underscoring its importance in carbohydrate metabolism in tobacco. (c) 2025 SAAB. Published by Elsevier B.V. All rights are reserved, including those for text and data mining, AI training, and similar technologies.
Keyword ：
Glycolysis Glycolysis Tobacco Tobacco Topping Topping Transcriptome Transcriptome Transplanting Transplanting
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| GB/T 7714 | Zhao, Xianbo , Yuan, Feiyue , Chen, Yiqiang et al. Effects of early transplanting and topping on glycolysis in the upper leaves of Nicotiana tabacum [J]. | SOUTH AFRICAN JOURNAL OF BOTANY , 2025 , 178 : 217-225 . |
| MLA | Zhao, Xianbo et al. "Effects of early transplanting and topping on glycolysis in the upper leaves of Nicotiana tabacum" . | SOUTH AFRICAN JOURNAL OF BOTANY 178 (2025) : 217-225 . |
| APA | Zhao, Xianbo , Yuan, Feiyue , Chen, Yiqiang , Zhang, Yiqi , Zhang, Ye , Zhang, Zhuangyi et al. Effects of early transplanting and topping on glycolysis in the upper leaves of Nicotiana tabacum . | SOUTH AFRICAN JOURNAL OF BOTANY , 2025 , 178 , 217-225 . |
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本发明属于农药技术领域，具体涉及天然膦酸化合物Argolaphos A的除草新用途。所述天然膦酸化合物Argolaphos A的结构式为：本发明研究发现，天然膦酸化合物Argolaphos A对十字花科植物拟南芥具有显著的除草效果，可抑制拟南芥叶片生长、减小拟南芥根长、减小拟南芥总鲜重。因此，天然膦酸化合物Argolaphos A可作为或制备成除草剂使用。
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| GB/T 7714 | 高江涛 , 廖丽娟 , 郑晓珊 . 天然膦酸化合物Argolaphos A的除草新用途 : CN202411638259.9[P]. | 2024-11-16 . |
| MLA | 高江涛 et al. "天然膦酸化合物Argolaphos A的除草新用途" : CN202411638259.9. | 2024-11-16 . |
| APA | 高江涛 , 廖丽娟 , 郑晓珊 . 天然膦酸化合物Argolaphos A的除草新用途 : CN202411638259.9. | 2024-11-16 . |
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Covering: 2000 to 2025This review explores the potential of artificial intelligence (AI) in addressing challenges and accelerating molecular insights in biosynthetic pathway research, which is crucial for developing bioactive natural products with applications in pharmacology, agriculture, and biotechnology. It provides an overview of various AI techniques relevant to this research field, including machine learning (ML), deep learning (DL), natural language processing, network analysis, and data mining. AI-powered applications across three main areas, namely, pathway discovery and mining, pathway design, and pathway optimization, are discussed, and the benefits and challenges of integrating omics data and AI for enhanced pathway research are also elucidated. This review also addresses the current limitations, future directions, and the importance of synergy between AI and experimental approaches in unlocking rapid advancements in biosynthetic pathway research. The review concludes with an evaluation of AI's current capabilities and future outlook, emphasizing the transformative impact of AI on biosynthetic pathway research and the potential for new opportunities in the discovery and optimization of bioactive natural products.
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| GB/T 7714 | Liao, Lijuan , Xie, Mengjun , Zheng, Xiaoshan et al. Molecular insights fast-tracked: AI in biosynthetic pathway research [J]. | NATURAL PRODUCT REPORTS , 2025 , 42 (5) : 911-936 . |
| MLA | Liao, Lijuan et al. "Molecular insights fast-tracked: AI in biosynthetic pathway research" . | NATURAL PRODUCT REPORTS 42 . 5 (2025) : 911-936 . |
| APA | Liao, Lijuan , Xie, Mengjun , Zheng, Xiaoshan , Zhou, Zhao , Deng, Zixin , Gao, Jiangtao . Molecular insights fast-tracked: AI in biosynthetic pathway research . | NATURAL PRODUCT REPORTS , 2025 , 42 (5) , 911-936 . |
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2-Aminovinyl-cysteine (AviCys) motifs represent a unique class of macrocyclic structures found in many ribosomally synthesized and post-translationally modified peptides (RiPPs). Despite their essential role in bioactivity, their biosynthetic machinery, particularly the cyclases catalyzing Avi(Me)Cys macrocyclization, has not been fully characterized. Herein, we report the discovery and biosynthetic elucidation of class V lanthipeptides rosin A1-A3, which feature a lanthionine (Lan) macrocycle and a C-terminal 2-aminovinyl-3-methyl-cysteine (AviMeCys) macrocycle. Rosins promote the migration of human foreskin fibroblast (HSF) cells, representing the first examples of lanthipeptides with cell migration-promoting activity. Comprehensive in vitro reconstitution revealed that the regio- and stereoselective AviMeCys macrocyclization is catalyzed by RosX, a newly identified cyclase with a kinase-like fold. Therefore, RosX-like cyclases, originally misannotated as kinase-like proteins, represent a unique class of cyclases that utilize the enethiol group for AviCys/AviMeCys macrocyclization. Furthermore, we demonstrate that Lan formation in rosins follows a substrate-controlled cyclization pathway with kinetic acceleration by the complex of kinase RosK and lyase RosY, which is distinct from the AviMeCys macrocyclization. This study resolves the long-standing ambiguity of enzymatic AviCys macrocyclization and provides a basis for biosynthetic exploration and bioengineering of AviCys-containing natural products across RiPP subfamilies.
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| GB/T 7714 | Xie, Xiang-Qian , Guo, Wen , Xia, Yin-Zheng et al. A Unique Class of Cyclases with a Kinase Fold Catalyzes Enethiol-Mediated Macrocyclization of Aminovinyl-Cysteine Motifs in Lanthipeptides [J]. | ACS CENTRAL SCIENCE , 2025 , 11 (7) : 1178-1188 . |
| MLA | Xie, Xiang-Qian et al. "A Unique Class of Cyclases with a Kinase Fold Catalyzes Enethiol-Mediated Macrocyclization of Aminovinyl-Cysteine Motifs in Lanthipeptides" . | ACS CENTRAL SCIENCE 11 . 7 (2025) : 1178-1188 . |
| APA | Xie, Xiang-Qian , Guo, Wen , Xia, Yin-Zheng , Liao, Li-Juan , Sun, Meng-Xin , Wang, Jing-Xue et al. A Unique Class of Cyclases with a Kinase Fold Catalyzes Enethiol-Mediated Macrocyclization of Aminovinyl-Cysteine Motifs in Lanthipeptides . | ACS CENTRAL SCIENCE , 2025 , 11 (7) , 1178-1188 . |
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Wang et al. identified dipeptidyl peptidase 4 (DPP4) as a gut microbederived enzyme that impacts on host glucose metabolism. They further introduced a novel therapeutic, daurisoline-d4 (Dau-d4), a selective microbial DPP4 (mDPP4) inhibitor that shows promise in improving glucose tolerance, highlighting the potential of therapies that target both host enzymes and gut microbial enzymes.
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| GB/T 7714 | Liao, Lijuan , Lin, Fan , Gao, Jiangtao . Microbial gatekeepers: unraveling the role of the gut microbiota enzyme DPP4 in diabetes management [J]. | TRENDS IN BIOCHEMICAL SCIENCES , 2024 , 49 (2) : 99-100 . |
| MLA | Liao, Lijuan et al. "Microbial gatekeepers: unraveling the role of the gut microbiota enzyme DPP4 in diabetes management" . | TRENDS IN BIOCHEMICAL SCIENCES 49 . 2 (2024) : 99-100 . |
| APA | Liao, Lijuan , Lin, Fan , Gao, Jiangtao . Microbial gatekeepers: unraveling the role of the gut microbiota enzyme DPP4 in diabetes management . | TRENDS IN BIOCHEMICAL SCIENCES , 2024 , 49 (2) , 99-100 . |
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As China emerges as a synthetic biology (synbio) global leader, it faces distinct science-society challenges. Our series offers a snapshot of China's synbio state, emphasizing the intersection and its policy implications. The debut piece elucidates the intellectual property rights (IPR)-funding interplay in China's expanding synbio territory, underlining its key role in driving innovation and commercialization.
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| GB/T 7714 | Liao, Lijuan , Lou, Yi , Tang, Xianming et al. Intellectual property and funding: fueling Chinese synbio [J]. | TRENDS IN BIOTECHNOLOGY , 2024 , 42 (3) : 258-260 . |
| MLA | Liao, Lijuan et al. "Intellectual property and funding: fueling Chinese synbio" . | TRENDS IN BIOTECHNOLOGY 42 . 3 (2024) : 258-260 . |
| APA | Liao, Lijuan , Lou, Yi , Tang, Xianming , Deng, Zixin , Gao, Jiangtao . Intellectual property and funding: fueling Chinese synbio . | TRENDS IN BIOTECHNOLOGY , 2024 , 42 (3) , 258-260 . |
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The development of tuberculosis (TB) therapy has been marked by the discovery of natural-product-derived streptomycin, followed by the introduction of NP-derived rifampicin, representing a significant milestone in the history of TB management. However, TB remains a global challenge, with the emergence of multidrug-resistant Mycobacterium tuberculosis highlighting the need for novel therapeutic agents. In this study, a bioinformatic approach was employed to investigate d-amino acid-activating adenylation domains, leading to the identification of cordysetin A (1), a novel trans-decalin tetramic acid antibiotic from the ascomycete fungi Cordyceps militaris. Cordysetin A (1) exhibits considerable activity against M. tuberculosis in vitro and in vivo while maintaining low cytotoxicity. These results reveal that the d-configuration of the amino acid within this hybrid polyketide-nonribosomal antibiotic is crucial for preserving its anti-tuberculosis efficacy. These findings emphasize the significant translational potential of cordysetin A as a promising candidate for TB treatment, furthering our understanding of bioinformatic approaches in the development of effective anti-tuberculosis agents.
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| GB/T 7714 | Gao, Yangle , Liao, Lijuan , Xu, Yuanteng et al. Bioinformatic Approaches Identify Hybrid Antibiotics against Tuberculosis via D-Amino Acid-Activating Adenylation Domains from Cordyceps militaris [J]. | JOURNAL OF NATURAL PRODUCTS , 2024 , 87 (8) : 2110-2119 . |
| MLA | Gao, Yangle et al. "Bioinformatic Approaches Identify Hybrid Antibiotics against Tuberculosis via D-Amino Acid-Activating Adenylation Domains from Cordyceps militaris" . | JOURNAL OF NATURAL PRODUCTS 87 . 8 (2024) : 2110-2119 . |
| APA | Gao, Yangle , Liao, Lijuan , Xu, Yuanteng , Huang, Jianzhong , Gao, Jiangtao , Li, Li . Bioinformatic Approaches Identify Hybrid Antibiotics against Tuberculosis via D-Amino Acid-Activating Adenylation Domains from Cordyceps militaris . | JOURNAL OF NATURAL PRODUCTS , 2024 , 87 (8) , 2110-2119 . |
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Tobacco, as an annual industrial crop, is significantly affected by agronomic practices such as transplanting and topping, which can influence the yield and quality of the upper leaves. However, the processes by which transcription factors integrate both agronomic practices remain unclear. In this study, eight treatments were designed based on varying transplanting and topping periods. RNA-seq was employed to analyze the transcriptional expression and identify key differentially expressed genes (DEGs) and transcription factors (TFs). Subsequently, a rigorous quality inspection and data cleaning process yielded 1,302,152,358 high-quality reads. The comparative analysis of 8 treatments identified a total of 4265 DEGs. Utilizing K-means analysis, these DEGs demonstrated 9 distinct expression patterns. GO and KEGG annotation revealed a significant association of these DEGs with photosynthesis and secondary metabolism. 10 hub genes including AFC2, SIGB, PGSIP8, BIG5, OSP1, RL13, PDC1, NtORF and EBG were identified through WGCNA analysis. 41 differentially expressed TFs were identified through transcription factor analysis. Among them, 10 TFs namely ABR1, ERF26, HAT5, HSF24, LUH, AGL8, TIFY5A, TIFY10A, WRKY4, and WRKY40 are directly associated with plant stress resistance. 5 TFs such as ERF110, IDD7, ATB40, NAC81, and NAC83 have been identified as positive regulators of growth and development, while 3 TFs such as BH130, TCP4, and WRKY53 have been found to negatively impact growth and development. Furthermore, 4 TFs have been implicated in hormone and light signaling pathways, namely CIGR1, BLH1, WRKY42, and EIN4. The identified hub genes and TFs suggest that early transplanting and topping (B1D1C) contribute to enhanced stress resistance in tobacco. This may result in more developed stomata on tobacco leaves, as well as an increase in leaf thickness and a reduction in leaf size. (c) 2024 SAAB. Published by Elsevier B.V. All rights are reserved, including those for text and data mining, AI training, and similar technologies.
Keyword ：
Nicotiana tabacum L Nicotiana tabacum L Topping Topping Transcription factor Transcription factor Transcriptome Transcriptome Transplanting Transplanting
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| GB/T 7714 | Zhao, Xianbo , Yuan, Feiyue , Chen, Yiqiang et al. Transcriptome analysis and transcription factors response to transplanting and topping time of upper leaf in tobacco (Nicotiana tabacum L.) [J]. | SOUTH AFRICAN JOURNAL OF BOTANY , 2024 , 175 : 314-325 . |
| MLA | Zhao, Xianbo et al. "Transcriptome analysis and transcription factors response to transplanting and topping time of upper leaf in tobacco (Nicotiana tabacum L.)" . | SOUTH AFRICAN JOURNAL OF BOTANY 175 (2024) : 314-325 . |
| APA | Zhao, Xianbo , Yuan, Feiyue , Chen, Yiqiang , Zhang, Ye , Zhang, Yiqi , Zhang, Yongan et al. Transcriptome analysis and transcription factors response to transplanting and topping time of upper leaf in tobacco (Nicotiana tabacum L.) . | SOUTH AFRICAN JOURNAL OF BOTANY , 2024 , 175 , 314-325 . |
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Our second piece dissects China's intricate balancing act in synthetic biology (synbio), analyzing its adept maneuvering between fostering innovation and imposing strict regulations. The priority is enhancing biosecurity, biosafety, and public trust, crucial for sustainable gene editing advancements and preventing potential misuse of synthetic viruses.
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| GB/T 7714 | Lou, Yi , Tang, Xianming , Liao, Lijuan et al. Biosafety and biosecurity: treading China's synbio tightrope [J]. | TRENDS IN BIOTECHNOLOGY , 2024 , 42 (4) : 389-392 . |
| MLA | Lou, Yi et al. "Biosafety and biosecurity: treading China's synbio tightrope" . | TRENDS IN BIOTECHNOLOGY 42 . 4 (2024) : 389-392 . |
| APA | Lou, Yi , Tang, Xianming , Liao, Lijuan , Deng, Zixin , Gao, Jiangtao . Biosafety and biosecurity: treading China's synbio tightrope . | TRENDS IN BIOTECHNOLOGY , 2024 , 42 (4) , 389-392 . |
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本发明属于天然化合物提取技术领域，具体涉及来源于链霉菌的膦酸化合物及其制备方法和应用。所述链霉菌（Streptomyces sp.）G0098已于2024年5月9日保藏于中国微生物菌种保藏管理委员会普通微生物中心，保藏地址为北京市朝阳区北辰西路1号院3号，保藏编号为CGMCC No.30537。所述膦酸化合物包括膦酸化合物1和膦酸化合物2，膦酸化合物1分子式为C5H5O7P，膦酸化合物2分子式为C5H5O6P。试验结果表明，膦酸化合物1和膦酸化合物2具有显著的除草活性。
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| GB/T 7714 | 高江涛 , 廖丽娟 . 来源于链霉菌的膦酸化合物及其制备方法和应用 : CN202410808170.6[P]. | 2024-06-21 . |
| MLA | 高江涛 et al. "来源于链霉菌的膦酸化合物及其制备方法和应用" : CN202410808170.6. | 2024-06-21 . |
| APA | 高江涛 , 廖丽娟 . 来源于链霉菌的膦酸化合物及其制备方法和应用 : CN202410808170.6. | 2024-06-21 . |
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