Article
Chemistry, Physical
He Tian, Zhen Ni, Sin Man Lam, Wenxi Jiang, Fengjuan Li, Jie Du, Yuan Wang, Guanghou Shui
Summary: This study develops a robust metabolomics approach for accurate quantitation and precise profiling of metabolomes. By introducing isotope-labeled standards (ISs) and refining the selection of appropriate ISs, this approach successfully reduces COVs and facilitates the identification of additional metabolites. The approach reveals perturbations in various metabolic pathways across aging, providing clues for the prevention and treatment of age-related diseases.
Article
Oncology
Shuangyuan Wang, Mian Li, Li Yan, Meian He, Hong Lin, Yu Xu, Qin Wan, Guijun Qin, Gang Chen, Min Xu, Guixia Wang, Yingfen Qin, Zuojie Luo, Xulei Tang, Tiange Wang, Zhiyun Zhao, Yiping Xu, Yuhong Chen, Yanan Huo, Ruying Hu, Zhen Ye, Meng Dai, Lixin Shi, Zhengnan Gao, Qing Su, Yiming Mu, Jiajun Zhao, Lulu Chen, Tianshu Zeng, Xuefeng Yu, Qiang Li, Feixia Shen, Li Chen, Yinfei Zhang, Youmin Wang, Huacong Deng, Chao Liu, Shengli Wu, Tao Yang, Donghui Li, Guang Ning, Tangchun Wu, Weiqing Wang, Yufang Bi, Jieli Lu
Summary: This study identified systematic metabolic network disorders before pancreatic cancer diagnosis and revealed significant associations of certain metabolites or product-to-precursor ratios with pancreatic cancer, including amino acids, lipids, vitamins, nucleotides, and peptides. A novel metabolite panel improved the area under the receiver operating characteristic curves (AUCs) for early detection of pancreatic cancer.
INTERNATIONAL JOURNAL OF CANCER
(2022)
Article
Clinical Neurology
Emrin Horgusluoglu, Ryan Neff, Won-Min Song, Minghui Wang, Qian Wang, Matthias Arnold, Jan Krumsiek, Beatriz Galindo-Prieto, Chen Ming, Kwangsik Nho, Gabi Kastenmueller, Xianlin Han, Rebecca Baillie, Qi Zeng, Shea Andrews, Haoxiang Cheng, Ke Hao, Alison Goate, David A. Bennett, Andrew J. Saykin, Rima Kaddurah-Daouk, Bin Zhang
Summary: This study aims to identify AD-specific metabolomic changes and their potential upstream genetic and transcriptional regulators through an integrative systems biology framework. The findings suggest that short-chain acylcarnitines/amino acids and medium/long-chain acylcarnitines are most associated with AD clinical outcomes. Integration of gene expression data reveals ABCA1 and CPT1A are involved in regulating acylcarnitines and amino acids in AD.
ALZHEIMERS & DEMENTIA
(2022)
Article
Microbiology
Ming-Yuan Xue, Yun-Yi Xie, Yifan Zhong, Xiao-Jiao Ma, Hui-Zeng Sun, Jian-Xin Liu
Summary: This study used metagenomics, metatranscriptomics, and metabolomics to uncover ruminal microbial features associated with feed efficiency in dairy cows. The results showed that high-efficiency animals had more and stronger microbial interactions in the rumen, with Selenomonas and members of the Succinivibrionaceae family playing key roles in carbohydrate metabolism. Analysis of ruminal metabolites identified six carbohydrates-derived metabolites as potential markers to differentiate efficient and inefficient microbiomes.
Article
Oncology
Xiao-li Yang, Peng Wang, Hua Ye, Ming Jiang, Yu-bin Su, Xuan-xian Peng, Hui Li, Jian-ying Zhang
Summary: Metabolomics is an efficient tool for screening biomarkers related to esophageal cancer. This study found that elevated amino acid metabolism and reduced carbohydrate metabolism are characteristic features of the disease. Metabolic differences were determined between different stages of the disease and between patients who received treatment and those who did not. Glycine, fructose, ornithine, and threonine were identified as potential biomarkers for evaluating disease prognosis and therapy in esophageal cancer.
FRONTIERS IN ONCOLOGY
(2022)
Article
Chemistry, Applied
Ou Sheng, Zhibin Yin, Wenjie Huang, Mengyu Chen, Mingyi Du, Qian Kong, Alisdair R. Fernie, Ganjun Yi, Shijuan Yan
Summary: This study provides a comprehensive understanding of genotype-associated carotenoid accumulation in bananas and highlights the impact of genotype on the levels of carotenoids and amino acids. These findings have important implications for the breeding of future high carotenoid banana cultivars.
Article
Plant Sciences
Zheng-He Lin, Chang-Song Chen, Qiu-Sheng Zhong, Qi-Chun Ruan, Zhi-Hui Chen, Xiao-Mei You, Rui-Yang Shan, Xin-Lei Li
Summary: This study highlights the different effects of N deficiency on the metabolism of tea leaves and roots. N-deficient tea leaves showed chlorosis, reduced biomass accumulation, and altered metabolite concentrations, while N-deficient tea roots exhibited increased accumulation of certain substances. N deficiency may lead to lower tea quality in leaves, but improved stress response in roots.
Article
Biochemical Research Methods
Ana Rita Lima, Marcia Carvalho, Susana S. Aveiro, Tania Melo, M. Rosario Domingues, Catarina Macedo-Silva, Nuno Coimbra, Carmen Jeronimo, Rui Henrique, Maria de Lourdes Bastos, Paula Guedes de Pinho, Joana Pinto
Summary: Prostate cancer is a global health problem. Metabolomics and lipidomics have the potential to identify new mechanisms underlying PCa development and progress, providing a basis for new and more effective therapies and diagnostics. This study found dysregulations in multiple metabolic pathways associated with PCa development, which may reflect reprogramming of metabolic responses to facilitate rapid proliferation of PCa cells.
JOURNAL OF PROTEOME RESEARCH
(2022)
Article
Horticulture
Zeng-Rong Huang, Han Zhang, Xin Ye, Ning-Wei Lai, Lin-Tong Yang, Jiu-Xin Guo, Li-Song Chen
Summary: This study investigated the metabolic responses to Mg deficiency in citrus leaves by analyzing the global metabolic profile of Mg-deficient leaves in Citrus sinensis seedlings. The findings revealed severe growth inhibition, leaf chlorosis, and significant changes in metabolites in Mg-deficient citrus seedlings compared to control. Mg deficiency led to upregulation of lipids and lipid-like molecules, and downregulation of phenylpropanoids and polyketides in Citrus sinensis leaves, with alterations in the relative abundances of monosaccharides, amino acids, leaf pigment compounds, and organic acids.
SCIENTIA HORTICULTURAE
(2021)
Article
Nutrition & Dietetics
Antonio Augusto Ferreira Carioca, Josiane Steluti, Aline Martins de Carvalho, Alexsandro Macedo Silva, Ismael Dale Cotrim Guerreiro da Silva, Regina Mara Fisberg, Dirce Maria Marchioni
Summary: Plasma metabolomic profiles were found to be associated with MetS, especially the amino acid serine and some acyl-alkyl phosphatidylcholines.
Article
Microbiology
Luiz Gustavo Gardinassi, Carolina do Prado Servian, Gesiane da Silva Lima, Deborah Carolina Carvalho dos Anjos, Antonio Roberto Gomes Jr, Adriana Oliveira Guilarde, Moara Alves Santa Barbara Borges, Gabriel Franco dos Santos, Brenda Grazielli Nogueira Moraes, Joao Marcos Maia Silva, Leticia Carrijo Masson, Flavia Pereira de Souza, Rodolfo Rodrigues da Silva, Giovanna Lopes de Araujo, Marcella Ferreira Rodrigues, Lidya Cardozo da Silva, Sueli Meira, Fabiola Souza Fiaccadori, Menira Souza, Pedro Roosevelt Torres Romao, Monica Spadafora Ferreira, Veronica Coelho, Andrea Rodrigues Chaves, Rosineide Costa Simas, Boniek Gontijo Vaz, Simone Goncalves Fonseca
Summary: COVID-19 is a complex disease with diverse clinical outcomes. Infection by SARS-CoV-2 triggers inflammatory and metabolic responses that can either protect or cause pathology. Understanding the interplay between inflammation and metabolism during COVID-19 is crucial. Through analysis of blood markers, cytokines, and metabolomes, this study identified significant metabolic alterations related to disease severity, survival outcome, and recovery. Manipulating specific metabolic pathways could potentially prevent hyperinflammation, organ dysfunction, and death.
MICROBIOLOGY SPECTRUM
(2023)
Article
Immunology
Luxin Pei, Kiyoshi F. Fukutani, Rafael Tiburcio, Adam Rupert, Eric W. Dahlstrom, Frances Galindo, Elizabeth Laidlaw, Andrea Lisco, Maura Manion, Bruno B. Andrade, Irini Sereti
Summary: The study identified metabolic disturbances in IRIS before and during the event, linking oxidative stress, tryptophan pathway, and lipid signaling with IRIS development. Metabolic pathways of lipids and amino acids were significantly associated with inflammatory biomarkers like IL-12p70 and IL-8 during the IRIS event, suggesting the impact of cellular metabolism on immune cell activation and vice versa.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Gastroenterology & Hepatology
Renyuan Gao, Chunyan Wu, Yefei Zhu, Cheng Kong, Yin Zhu, Yaohui Gao, Xiaohui Zhang, Rong Yang, Hui Zhong, Xiao Xiong, Chunqiu Chen, Qian Xu, Huanlong Qin
Summary: This study identified microbial and metabolic signatures of colorectal cancer (CRC) with broad population relevance, developed a diagnostic panel for CRC and adenoma, and linked many CRC-associated metabolites with gut microbiome signatures of the disease, providing new insights for exploring CRC-related features.
Article
Cell Biology
Kexin Wang, Xiangmin Ye, Chuanhui Yin, Qing Ren, Yupeng Chen, Xuemei Qin, Chuanzhi Duan, Aiping Lu, Li Gao, Daogang Guan
Summary: Matrine, an active ingredient from traditional Chinese medicine, has been found to have anti-hepatocellular carcinoma (HCC) effects. This study used metabolomics and bioinformatics to investigate the underlying mechanism of matrine on HCC. The results showed that matrine regulates the metabolic network of HCC, inhibits tumor growth and invasion, and enhances cell adhesion. Various metabolic pathways were found to be regulated by matrine, suggesting its potential anti-cancer mechanisms.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Nutrition & Dietetics
Pei-Shin Gu, Kuan-Wen Su, Kuo-Wei Yeh, Jing-Long Huang, Fu-Sung Lo, Chih-Yung Chiu
Summary: This study used metabolomics-based approaches to investigate the molecular mechanisms of childhood hypercholesterolemia and identified metabolites significantly associated with different cholesterol levels. Glutamic acid and tyrosine were identified as crucial amino acids in lipid metabolism, with glutamic acid-related amino acid metabolism playing a significant role in regulating cholesterol levels.
Article
Cell Biology
Chaojuan Yang, Yonglu Tian, Feng Su, Yangzhen Wang, Mengna Liu, Hongyi Wang, Yaxuan Cui, Peijiang Yuan, Xiangning Li, Anan Li, Hui Gong, Qingming Luo, Desheng Zhu, Peng Cao, Yunbo Liu, Xunli Wang, Min-hua Luo, Fuqiang Xu, Wei Xiong, Liecheng Wang, Xiang-yao Li, Chen Zhang
Summary: This study showed that loss of Fmr1 impaired signal processing in the primary visual cortex (V1) of mice, leading to enhanced responses to low-intensity stimuli, increased local network connectivity, and dendritic complexity of V1 neurons. These effects could be ameliorated by GABA(A) receptor activators or reintroducing Fmr1 gene expression.
Article
Biology
Dandan Ma, Fulin Wang, Rongyi Wang, Yingchun Hu, Zhiquan Chen, Ning Huang, Yonglu Tian, Yuqing Xia, Junlin Teng, Jianguo Chen
Summary: In this study, new components of the subdistal appendage (SDA), alpha-taxilin and gamma-taxilin, were identified and found to form a complex and play a role in the hierarchical assembly of the SDA. Additionally, the molecular composition and functional understanding of the SDA were revealed.
Article
Neurosciences
Feng Su, Yonglu Tian
Summary: Accurate and efficient non-rigid registration is crucial for multi-session two-photon imaging research, but registering neural images across sessions remains challenging. This study introduces a non-rigid registration method based on image triangulation and piecewise affine transformation, which demonstrates excellent performance in benchmark tests.
Article
Biochemistry & Molecular Biology
Yan Zhao, Xinping Huang, Dan Zhu, Min Wei, Jiechen Luo, Shuyu Yu, Yonglu Tian, Xiaofeng Zheng
Summary: This study demonstrates that OTUD6A plays a critical role in promoting tumor cell resistance to chemoradiotherapy by deubiquitinating and stabilizing TopBP1. Dysregulation of OTUD6A expression is associated with breast cancer development.
CELL DEATH AND DIFFERENTIATION
(2022)
Article
Environmental Sciences
Lu Chen, Yongzhong Qian, Qi Jia, Rui Weng, Xinglian Zhang, Yun Li, Jing Qiu
Summary: This study investigated the occurrence of organochlorine pesticides (OCPs) in inland freshwater aquaculture ponds (IFAPs) in China. The results showed significant variations in OCP levels in sediments between different regions, with crabs being the most contaminated species. DDTs were found to be the dominant contaminant in both sediments and crabs, with stable degradation products 4,4'-DDE and 4,4'-DDD co-occurring in these compartments. The study also suggested that fresh inputs of DDTs, lindane, and aldrin in multiple regions may be attributed to agricultural soil erosion, surface runoff, and local anthropogenic activities.
ENVIRONMENTAL POLLUTION
(2022)
Article
Chemistry, Applied
Jing Nie, Rui Weng, Chunlin Li, Xiuhua Liu, Fang Wang, Karyne M. Rogers, Yongzhong Qian, Yongzhi Zhang, Yuwei Yuan
Summary: Geographical origin significantly influences the stable isotopes, elemental contents, and sulfur-containing compounds in Chinese garlic. Models utilizing these features provide a high accuracy method for authenticating the origin of Chinese garlic.
Article
Chemistry, Multidisciplinary
Yecan Pan, Rui Weng, Linghao Zhang, Jing Qiu, Xinlu Wang, Guangqin Liao, Zhaohui Qin, Lingpu Zhang, Haihua Xiao, Yongzhong Qian, Xin Su
Summary: Cellular oxidative stress caused by reactive oxygen species (ROS) and its induced molecular response is crucial in the development of various diseases and biological processes. By using DNA nanostructure-based fluorescent probes, the localization and abundance of ROS and its related molecules can be simultaneously mapped in living cells. This study introduces intramolecular Orthogonal Reporters (iOR) based on DNA nanostructure scaffolds, which eliminate undesired fluorophore interaction by precise positioning of fluorescence reporters. iOR, functionalized with nuclear localization signal peptide, enables high sensitivity and specificity in imaging ROS and its associated DNA repair enzyme (APE1) in the nucleus and cytoplasm. The study reveals a strong positive correlation and synergistic regulation between ROS and APE1 in living cells and tumor-bearing mice through direct fluorescence imaging. This work presents a new approach for developing nanostructure-based molecular probes with broad applications in cellular biology and nanotechnology.
Article
Environmental Sciences
Lu Chen, YongZhong Qian, Qi Jia, Rui Weng, Xinglian Zhang, Yun Li, Jing Qiu
Summary: Organochlorine pesticides (OCPs) are persistent organic pollutants (POPs) that resist degradation in the environment. China's cropland systems still contain detectable levels of OCPs. The spatial distribution of OCPs and their associated ecological and health risks, as well as the relationship between OCP levels in cropland soils and crops, are not fully understood. This study conducted a national-scale characterization of OCPs in cropland soils and food crops in China, revealing the dominance of DDTs in cropland systems and the contamination of peanuts and rice with various OCPs. The presence of OCPs in China's cropland systems raises concerns for both the environment and human health.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Oncology
Min Wei, Xinping Huang, Liming Liao, Yonglu Tian, Xiaofeng Zheng
Summary: The SUMOylation-induced LLPS of RNF168 suppresses the DNA damage response, while SENP1 decreases RNF168 SUMOylation to promote DNA damage repair and cancer cell resistance.
Article
Oncology
Liping Du, Junyan Li, Yonglu Tian, Renqing Feng
Summary: TGF-beta induces the expression of PLEK2, which promotes breast cancer cell migration, invasion, and dissemination. Higher PLEK2 expression is associated with poor prognosis in breast cancer patients. PLEK2 interacts with PPM1B and utilizes NF-kappa B signaling to promote cell migration and invasion, suggesting PLEK2/PPM1B as potential therapeutic targets for breast cancer metastasis.
Article
Chemistry, Applied
Xu Pang, Jing Qiu, Zhaoyang Zhang, Pi Li, Jiangtao Xing, Xin Su, Guiqiao Liu, Changyuan Yu, Rui Weng
Summary: This study developed a sensitive and reliable method for multi-residue analysis of pesticides in beef using 191 pesticides. The method employed the QuEChERS method for extraction and purification of the pesticides, followed by analysis using GC-Q-Orbitrap-MS. The results showed satisfactory sensitivity, accuracy, and precision of the method.
Article
Cell Biology
Yuanjun Li, Yonglu Tian, Xiayuhe Pei, Pengli Zheng, Linqing Miao, Lingjun Li, Chunxiong Luo, Peixun Zhang, Baoguo Jiang, Junlin Teng, Ning Huang, Jianguo Chen
Summary: Proper microtubule dynamics are crucial for neuronal morphogenesis and functions. This study shows that Scg10 knockout mice exhibit severe motor and sensory dysfunctions, with deficits in nerve myelination and neuromuscular degeneration. The study also suggests that SCG10 plays an important role in axon maintenance and regeneration by regulating microtubule dynamics.
JOURNAL OF CELL SCIENCE
(2023)
Article
Chemistry, Applied
Jiguang Zhang, Xiaojing Sheng, Jianmin Cao, Song Fang, Xue Liu, Xiuhua Liu, Liangrui Peng, Huiqing Sun, Rui Weng
Summary: In this study, the residual status and associated risks of 208 pesticides in edible mints were evaluated. Among the 16 pesticide residues detected, difenoconazole had the highest detection rate. A significant proportion of mint samples were detected with at least one pesticide residue. The dietary risk was measured as cHQ and aHQ and was found to be acceptable in both adults and children, although the aHQ in children was comparatively higher.
JOURNAL OF FOOD COMPOSITION AND ANALYSIS
(2023)
Article
Environmental Sciences
Tianrun Wang, Xuying Zhao, Tianze Liu, Jiguang Zhang, Jing Qiu, Mei Li, Rui Weng
Summary: This study investigated the toxic mechanisms of PFOS by identifying novel hub genes and pathways affected by PFOS exposure. The results suggested that PFOS exposure can lead to changes in body weight, as well as abnormal ultra-structures in the liver and kidney tissues. Transcriptomic analysis revealed alterations in gene expression related to metabolism, cellular processes, and biological regulation. Additionally, six key pathways were identified through analysis of KEGG and GSEA.
Article
Endocrinology & Metabolism
Lindsey Rasmussen, Zachary Foulks, Jiandong Wu, Casey Burton, Honglan Shi
Summary: This study investigates the pteridine biosynthetic pathway in breast cancer cells and its relationship with tumorigenicity using direct pteridine dosing. The results reveal altered metabolism of several pteridines in breast cancer cell lines, highlighting potential targets for further investigation and clinical applications in breast cancer research.
