Article
Biochemistry & Molecular Biology
Lin Shen, Han Li, Weiqian Chen, Yanping Su, Junchao Yu, Minjiang Chen, Gaofeng Shu, Enqi Qiao, Xiaoju Guo, Min Xu, Shuiwei Xia, Zhongwei Zhao, Chenying Lu, Jiansong Ji
Summary: The polarization of macrophages in aged atherosclerotic plaques can lead to severe calcification and necrosis, leading to poor prognosis of ischemic cardiovascular and cerebrovascular diseases. Integrated analysis of metabolomics and transcriptomics identified metabolic therapeutic targets associated with macrophage polarization in aged plaques. Targeted treatment with metabolic inhibitors effectively reduces the adverse risk of aged atherosclerosis.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE
(2022)
Article
Environmental Sciences
Xiangrong Chen, Mohamed F. Abdallah, Charlotte Grootaert, Filip Van Nieuwerburgh, Andreja Rajkovic
Summary: This study investigated the combined toxicity of Aflatoxin B1 (AFB1) and fumonisin B1 (FB1) on mitochondrial and glycolytic activity in HepG2 cells. The results showed that the co-exposure, especially at high doses, significantly inhibited mitochondrial respiration. Moreover, RNA transcriptome sequencing revealed differential expression of the p53 signaling pathway and downregulation of genes encoding for Complexes I, II, III, and IV.
ENVIRONMENT INTERNATIONAL
(2023)
Article
Environmental Sciences
Bing Yang, Xiaofeng Li
Summary: This study analyzed gene expression data of chicken embryo primary hepatocytes treated with and without AFB1, identifying 1,711 differentially expressed genes and revealing their involvement in various biological processes and signaling pathways. Additionally, several hub genes implicated in AFB1-induced hepatotoxicity were identified.
ENVIRONMENTAL RESEARCH
(2023)
Article
Chemistry, Multidisciplinary
Zhuoling An, Yuan Sun, Chen Shi, Lihong Liu
Summary: This study aimed to explore novel biomarkers related to the hepatotoxic effects of Tripterygium glycosides tablet (TGT) in rats, and found potential biomarkers that can accurately predict hepatic damage. The study also revealed the metabolic pathways most affected by hepatotoxicity and identified differentially expressed genes associated with amino acid metabolism. The findings provide important insights into the relationship between amino metabolism and liver injury and offer potential biomarkers for further research and clinical applications.
DRUG AND CHEMICAL TOXICOLOGY
(2023)
Article
Food Science & Technology
Yu Zhang, Ke-Xin Cao, Qin-Jian Niu, Jiang Deng, Ling Zhao, Mahmoud Mohamed Khalil, Niel Alexander Karrow, Kamil Kuca, Lv-Hui Sun
Summary: This study aimed to identify the key glutathione S-transferase (GST) isozymes involved in the detoxification of Aflatoxin B1 (AFB1) in ducks' primary hepatocytes. The researchers isolated and cloned the full-length cDNA encoding 10 GST isozymes from ducks' liver. The results showed that overexpression of GST and GST3 mitigated the toxic effects of AFB1 and increased the detoxified product of AFB1 in ducks' primary hepatocytes.
FOOD AND CHEMICAL TOXICOLOGY
(2023)
Article
Agriculture, Multidisciplinary
Xiaoying Ma, Yongli Ye, Jiadi Sun, Jian Ji, Jia-Sheng Wang, Xiulan Sun
Summary: This study investigated the combined toxic effects of aflatoxin B1 (AFB1) and cyclopiazonic acid (CPA) using cocultured hepatocyte spheroids as the evaluation model. The results showed that AFB1 and CPA may cause mitochondrial damage and cellular oxidative stress. Gene expression analysis and metabolomics revealed the potential mechanisms underlying this combined toxic effect.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Veterinary Sciences
Muhammad Umar Ijaz, Ayesha Ishtiaq, Nazia Ehsan, Muhammad Imran, Guo-ping Zhu
Summary: Genkwanin (GNK) has the potential to treat Aflatoxin B1 (AFB1) induced hepatotoxicity due to its antioxidative and anti-inflammatory effects. The study showed that co-administration of GNK and AFB1 significantly improved liver damage caused by AFB1 in rats, including improved biochemical markers, reduced oxidative stress, and inflammation.
PAKISTAN VETERINARY JOURNAL
(2022)
Article
Food Science & Technology
Xue Yang, Xue Li, Yanan Gao, Jiaqi Wang, Nan Zheng
Summary: Aflatoxin B1 (AFB1) and aflatoxin M1 (AFM1) are environmental pollutants that pose a carcinogenic risk to humans. This study found that AFB1 and AFM1 affect intestinal resistance to pollutants and cause lipid metabolism disorders, which may be the main mechanism of their enterotoxicity.
Article
Biology
Hayam Hamdy, Yi Yang, Cheng Cheng, Qizhan Liu
Summary: This study identified BUB1B and RRM2 as core genes in Aflatoxin B1-induced liver fibrosis and liver cancer. The high expression of BUB1B gene is associated with increased JAK-STAT signaling and immunotherapy-related impact. These findings provide potential biomarkers and targets for detection and therapy of Aflatoxin B1-induced liver fibrosis and cancer.
Article
Engineering, Environmental
Chen Su, Jinbao Li, Luqing Pan, Mengyu Zhang, Zhifei Chen, Mingxiang Lu
Summary: Aflatoxin B1 (AFB1) is highly toxic and poses significant health risks. This study utilized pacific white shrimp as a model to investigate the toxicity mechanisms of AFB1 and the potential alleviating effects of bile acids. The findings revealed that AFB1 exposure inhibited shrimp growth and immune response, while dietary bile acids alleviated AFB1-induced growth retardation and immunotoxicity. The study provides new insights into AFB1 toxicity in invertebrates and highlights the potential of bile acids in alleviating its effects.
JOURNAL OF HAZARDOUS MATERIALS
(2023)
Article
Biochemistry & Molecular Biology
Wen-Chao Liu, Yu-Ying Yang, Karthika Pushparaj, Balamuralikrishnan Balasubramanian
Summary: The results of this study showed that dietary seaweed-derived polysaccharides (SDP) could alleviate AFB(1)-induced liver toxicity in broilers. This was achieved by inhibiting phase I detoxification enzymes and upregulating the p38MAPK/Nrf2-mediated phase II detoxification enzyme pathway.
Article
Chemistry, Analytical
Hema Bhardwaj, Gajjala Sumana, Christophe A. Marquette
Summary: This study reports the development of an electrical and optical biosensor using gold nanobipyramids for label-free detection of Aflatoxin B-1. The sensor showed high sensitivity and robustness, and was successfully applied in detecting AFB-1 in maize samples.
Article
Orthopedics
Wei Wang, Jun Kou, Mingmei Zhang, Tao Wang, Wei Li, Yamen Wang, Qingyun Xie, Meng Wei
Summary: Using GC/LC-MS technology, this study found 23 serum metabolic markers related to acute gouty arthritis (AGA) and asymptomatic hyperuricemia (HUA), mainly related to uric acid metabolism and inflammatory response caused by HUA/AGA. These findings may provide a basis for disease risk prediction and early diagnosis.
JOURNAL OF ORTHOPAEDIC SURGERY AND RESEARCH
(2023)
Article
Environmental Sciences
Sihong Li, Ruimeng Liu, Gaoqiang Wei, Guifang Guo, Hongxiao Yu, Yixin Zhang, Muhammad Ishfaq, Saqib Ali Fazilani, Xiuying Zhang
Summary: Experimental research shows that curcumin can prevent AFB1-induced oxidative stress, inflammation, and apoptosis through LncRNAs, alleviating liver damage.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2021)
Article
Chemistry, Analytical
Zhihui Wu, Da-Wen Sun, Hongbin Pu, Qingyi Wei
Summary: A novel fluorescence biosensor based on CRISPR/Cas12a and MXenes was developed for AFB1 detection in food. The biosensor showed a wide detection range, low detection limit, and rapid detection time, and demonstrated excellent detection performance in real samples.
Article
Biochemical Research Methods
Nils Foerster, Joshua Butke, Hagen Eike Kessel, Farina Bendt, Melanie Pahl, Lu Li, Xiaohui Fan, Ping-chung Leung, Joerdis Klose, Stefan Masjosthusmann, Ellen Fritsche, Axel Mosig
Summary: This study introduces and validates a deep learning approach for identifying and quantifying cell types in microscopic images of differentiated human neural stem/progenitor cells (hNPC). The method demonstrates high accuracy and robustness against potential confounders, and shows potential for medium or high throughput in vitro screening studies to study compound effects on neural differentiation processes in an automated and unbiased process.
Article
Chemistry, Analytical
Bo Fan, Yingchao Wang, Zhenhao Li, Dejin Xun, Jian Dong, Xiangwei Zhao, Xiaohui Fan, Yi Wang
Summary: This paper presents a novel method for detecting illegal adulteration of sulfur dioxide in traditional Chinese medicine, showing a low detection limit, satisfactory sensitivity, and stability during testing. The method provides a simple way for on-site detection of sulfur dioxide.
Article
Chemistry, Physical
Kaiyu Jin, Shan Gao, Penghui Yang, Rongfang Guo, Dan Li, Yunsha Zhang, Xiaoyan Lu, Guanwei Fan, Xiaohui Fan
Summary: This study identifies major immune cell populations and distinct subsets at different time points after myocardial infarction (MI) using single-cell RNA sequencing analysis. The study shows that certain subsets with strong expression of inflammatory factors play a crucial role in the pathological progression of MI. Inhibiting these subsets can attenuate adverse remodeling and potentially lead to the development of cell type- and time-specific interventions for MI.
Article
Cell Biology
Jordis Klose, Lu Li, Melanie Pahl, Farina Bendt, Ulrike Hubenthal, Christian Jungst, Patrick Petzsch, Astrid Schauss, Karl Kohrer, Ping Chung Leung, Chi Chiu Wang, Katharina Koch, Julia Tigges, Xiaohui Fan, Ellen Fritsche
Summary: Adverse Outcome Pathways (AOPs) provide a framework for linking toxicological mechanistic information with adverse health effects. This study combines phenotypic and transcriptomic analyses to assess the developmental neurotoxicity (DNT) hazards of two Chinese herbal medicines and gain insights into their modes-of-action. The results demonstrate the power of this approach in elucidating compounds' MoA and incorporating them into novel or existing AOPs for a better understanding of DNT risk in a regulatory context.
CELL BIOLOGY AND TOXICOLOGY
(2023)
Review
Chemistry, Multidisciplinary
Junyun Cheng, Gaole Lin, Tianhao Wang, Yunzhu Wang, Wenbo Guo, Jie Liao, Penghui Yang, Jie Chen, Xin Shao, Xiaoyan Lu, Ling Zhu, Yi Wang, Xiaohui Fan
Summary: CRISPR-based genetic screening is a powerful approach for unbiased functional genomics research. Single-cell CRISPR screening techniques allow the analysis of regulatory networks in complex biological systems at unprecedented resolution. These methods involve perturbing cells en masse using a pooled CRISPR library and high-content phenotyping.
Article
Multidisciplinary Sciences
Jingyang Qian, Jie Liao, Ziqi Liu, Ying Chi, Yin Fang, Yanrong Zheng, Xin Shao, Bingqi Liu, Yongjin Cui, Wenbo Guo, Yining Hu, Hudong Bao, Penghui Yang, Qian Chen, Mingxiao Li, Bing Zhang, Xiaohui Fan
Summary: The single-cell RNA-seq technology eliminates the spatial information of individual cells, but we propose a method called scSpace, which reconstructs cells onto a pseudo-space using spatial transcriptome references to identify spatially variable cell subpopulations.
NATURE COMMUNICATIONS
(2023)
Article
Pharmacology & Pharmacy
Junyun Cheng, Jie Chen, Jie Liao, Tianhao Wang, Xin Shao, Jinbo Long, Penghui Yang, Anyao Li, Zheng Wang, Xiaoyan Lu, Xiaohui Fan
Summary: A new approach called TCM-seq was developed to comprehensively evaluate the therapeutic effects of Panax ginseng and Panax notoginseng at the transcriptomic level. The study revealed significant differences in the regulatory effects of ginseng and notoginseng on genes, functional pathways, and molecular networks. This research provides a new paradigm for exploring the mechanisms of action of traditional Chinese medicines.
JOURNAL OF PHARMACEUTICAL ANALYSIS
(2023)
Article
Pharmacology & Pharmacy
Lingqi Yu, Jun Yan, Yingqi Zhan, Anyao Li, Lidan Zhu, Jingyang Qian, Fanfan Zhou, Xiaoyan Lu, Xiaohui Fan
Summary: This study used single-cell RNA sequencing to investigate the dynamics and functions of hepatic non-parenchymal cells (NPCs) in autoprotection against drug-induced liver injury (DILI). The findings revealed the important roles of specific cell subsets, including thorn endothelial cells, dendritic cells, natural killer cells, and anti-inflammatory macrophages and neutrophils, in autoprotection against DILI. These findings provide new insights into the mechanisms of DILI and may contribute to the development of prevention and therapy strategies.
JOURNAL OF PHARMACEUTICAL ANALYSIS
(2023)
Article
Computer Science, Artificial Intelligence
Yin Fang, Qiang Zhang, Ningyu Zhang, Zhuo Chen, Xiang Zhuang, Xin Shao, Xiaohui Fan, Huajun Chen
Summary: Deep learning models are used to predict molecular properties, but their lack of interpretability and generalizability to different chemical spaces is a challenge. In this study, a chemical element-oriented knowledge graph is introduced to provide prior knowledge and a method called KANO is proposed for knowledge graph-enhanced molecular contrastive learning. Results show that KANO outperforms other models in predicting molecular properties and provides chemically sound explanations for its predictions.
NATURE MACHINE INTELLIGENCE
(2023)
Article
Cell Biology
Dingyi Yu, Penghui Yang, Xiaoyan Lu, Shaoze Huang, Li Liu, Xiaohui Fan
Summary: This study focuses on the efficacy and mechanism of the combination therapy with Shenmai injection (SMI) and PD-1 inhibitor against non-small cell lung cancer (NSCLC). The results show that the combination therapy can inhibit tumor growth, prolong survival, and reduce adverse events. The overactivation of NK cells and tumor cell apoptosis are identified as the main mechanisms of the combination therapy.
CELL COMMUNICATION AND SIGNALING
(2023)
Review
Biochemistry & Molecular Biology
Wenbo Guo, Yining Hu, Jingyang Qian, Lidan Zhu, Junyun Cheng, Jie Liao, Xiaohui Fan
Summary: Spatial omics technologies provide valuable insights into cells and tissues within a complex context, enhancing our understanding of complex biological systems. Laser capture microdissection (LCM) is an advanced method that quickly collects regions of interest (ROIs) from heterogeneous tissues, and is widely used for studying the cellular and molecular mechanisms of diseases.
JOURNAL OF GENETICS AND GENOMICS
(2023)
Article
Multidisciplinary Sciences
Ting Huang, Ruyi Lin, Yuanqin Su, Hao Sun, Xixi Zheng, Jinsong Zhang, Xiaoyan Lu, Baiqin Zhao, Xinchi Jiang, Lingling Huang, Ni Li, Jing Shi, Xiaohui Fan, Donghang Xu, Tianyuan Zhang, Jianqing Gao
Summary: The use of high-powered mesenchymal stem cells for efficient mitochondrial delivery can restore impaired mitochondrial homeostasis, recover cellular functions, and successfully mitigate the progression of pulmonary fibrosis.
NATURE COMMUNICATIONS
(2023)
Article
Medicine, Research & Experimental
Shaoxue Zeng, Ting Zhang, Yingying Chen, Joshua Chu-Tan, Kaiyu Jin, So-Ra Lee, Michelle X. Yam, Michele C. Madigan, Nilisha Fernando, Adrian Cioanca, Fanfan Zhou, Meidong Zhu, Junjun Zhang, Riccardo Natoli, Xiaohui Fan, Ling Zhu, Mark C. Gillies
Summary: This study found that the MAPK (ERK1/2) signaling pathway is mainly activated in stressed Muller cells. Inhibition of MAPK (ERK1/2) phosphorylation can alleviate gliosis in Muller cells and restore the expression of IRBP in photoreceptors, thus preventing retinal degeneration. The JAK/STAT3 signaling pathway may mediate the signal transduction from Muller cells to photoreceptors.
Article
Biochemistry & Molecular Biology
Anyao Li, Jihong Yang, Jingyang Qian, Xin Shao, Jie Liao, Xiaoyan Lu, Xiaohui Fan
Summary: This study proposes a GCN construction pipeline called scDisProcema, which can track dynamic changes of immune system response during COVID-19 disease progression using single-cell data. By identifying gene modules responsible for different immune cells and explaining the molecular mechanisms underlying cell depletion or proliferation caused by the disease, scDisProcema has great potential in exploring molecular changes during disease progression.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Biotechnology & Applied Microbiology
Bohu Pan, Luyao Ren, Vitor Onuchic, Meijian Guan, Rebecca Kusko, Steve Bruinsma, Len Trigg, Andreas Scherer, Baitang Ning, Chaoyang Zhang, Christine Glidewell-Kenney, Chunlin Xiao, Eric Donaldson, Fritz J. Sedlazeck, Gary Schroth, Gokhan Yavas, Haiying Grunenwald, Haodong Chen, Heather Meinholz, Joe Meehan, Jing Wang, Jingcheng Yang, Jonathan Foox, Jun Shang, Kelci Miclaus, Lianhua Dong, Leming Shi, Marghoob Mohiyuddin, Mehdi Pirooznia, Ping Gong, Rooz Golshani, Russ Wolfinger, Samir Lababidi, Sayed Mohammad Ebrahim Sahraeian, Steve Sherry, Tao Han, Tao Chen, Tieliu Shi, Wanwan Hou, Weigong Ge, Wen Zou, Wenjing Guo, Wenjun Bao, Wenzhong Xiao, Xiaohui Fan, Yoichi Gondo, Ying Yu, Yongmei Zhao, Zhenqiang Su, Zhichao Liu, Weida Tong, Wenming Xiao, Justin M. Zook, Yuanting Zheng, Huixiao Hong
Summary: This study systematically evaluates the reproducibility of inherited variants with whole genome sequencing (WGS) and identifies the impact of different factors on variant call quality. The findings show that bioinformatics pipelines have a larger impact on reproducibility than WGS platform or library preparation. Single-nucleotide variants (SNVs) are more reproducible than small insertions and deletions (indels), and increasing sequencing coverage improves indel reproducibility but has limited impact on SNVs above 30x.
