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A systematic understanding of microbial reductive dechlorination towards an improved “one health” soil bioremediation: A review and perspective

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Science China Technological Sciences 2024年第10期67卷 3009-3031页

作者： HE Yan LI ShuYao YUAN Jing CHENG Jie DOU JiBo YANG XueLing XU JianMing Zhejiang Provincial Key laboratory of Agricultural Resources and Environment Institute of Soil and Water Resources and Environmental ScienceCollege of Environmental and Resource SciencesZhejiang University Key laboratory of Environment Remediation and Ecological Health Ministry of Education microbiome Network and Department of Agricultural Biology Colorado State University Departments of Chemistry and Chemical & Biomolecular Engineering Institute for Functional Intelligent Materials (I-FIM)National University of Singapore

Chlorinated organic pollutants(COPs), both emerging and traditional, are typical persistent pollutants that harm soil health worldwide. Dechlorinators mediated reductive dechlorination is the optimal way to completely remove COPs from anaerobic soil through a redox reaction driven by electron transfer during microbial anaerobic respiration. Generally, the dechlorinated depletion of COPs in situ often interacts with multiple element biogeochemical activities, e.g., methanogenesis, sulfate reduction, iron reduction, and denitrification. Elucidating the relevance of biogeochemical cycles between COPs and multiple elements and the coupled mechanisms involved, thus, helps to develop effective pollution control strategies with the balance between pollution degradation and element cycles in heterogeneous soil, ultimately contributing to “one health” goal. In this review, we summarized the microbial-chemical coupling redox processes and the driving factors, elucidated the interspecies metabolites exchange and electron transfer mechanisms within COP-dechlorinating communities, and further proposed a detailed design, construction, and analysis framework of engineering COP-dechlorinating microbiomes via “top-down” selfassembly and “bottom-up” synthesis to pave the way from laboratory to practical field application. Especially, we delve into the major challenges and perspectives surrounding the design of state-of-the-art synthetic microbial communities. Our goal is to improve the understanding of the microbial-mediated coupling between reductive dechlorination and element biogeochemical cycling, with a particular focus on the implications for health-integrated soil bioremediation under the “one health” concept.

关键词： reductive dechlorination biogeochemical redox processes interspecies interaction synthetic microbiomes, anaerobic soils

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Fucoxanthin improves serum lipids， liver metabolism and gut microbiota in hyperlipidemia mice

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Food Science and Human Wellness 2024年

作者： Yonghui Zhou Jingyi Zhang Kun Xu Weihao Zhang Feng Chen Bin Liu Bingbing Guo Faculty of Environment and Life， Beijing University & Technology Shenzhen Key laboratory of Marine microbiome Engineering， Institute for Carbon Neutrality， Institute for Advanced Study， Shenzhen University

Fucoxanthin， a kind of exclusively algae-derived carotenoids， could reduce lipid content and regulate gut microbiota composition in obese mice， showing potential in preventing hyperlipidemia. This study aimed to illustrate fucoxanthin efficacy in modulating lipid metabolism in serum and liver of high-fat-induced hyperlipidemia mice， as well as investigate the underlying association with gut microbiota changes. Results showed that fucoxanthin significantly reduced body weight gain and body white fat of the mice. In the serum， total triglycerides (TG)， total cholesterol (TC) contents were significantly decreased and high-density-lipoprotein cholesterol levels was significantly upregulated. Moreover， fucoxanthin remarkedly prevented lipid accumulation in the liver. Especially， metabolomics results showed that lipids and lipid-like molecules were significantly downregulated compared with the control， indicating the advance of hepatic lipid metabolism. Bile acids profile in the liver was also greatly changed by fucoxanthin. Meanwhile， fucoxanthin remodeled gut microbiota composition and promoted the relative abundance of Desulfovibrio， Blautia and Clostridia genera. Finally， correlation analysis revealed that these gut microbiota changes were closely related with hepatic metabolites/metabolism and serum lipids. Altogether， this study showed great potential of fucoxanthin in improving serum lipids profile， hepatic lipids and bile acids metabolism of hyperlipidemia mice， which was associated with gut microbiota alteration.

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An overview of potential cardioprotective benefits of xanthophylls in atherosclerosis:an evidence-based review

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Food Science and Human Wellness 2024年第4期13卷 1739-1755页

作者： Yuting Su Feng Chen Jiehua Chen Mingfu Wang Shenzhen Key laboratory of Marine microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhen 518060China Institution for Innovative Development of Food Industry Shenzhen UniversityShenzhen 518060China College of Civil and Transportation Engineering Shenzhen UniversityShenzhen 518060China Shenzhen Key laboratory of Food Nutrition and Health Shenzhen UniversityShenzhen 518060China

Atherosclerosis,as the most prevalent form of cardiovascular disease,is characterized by oxidized lowdensity lipoprotein(ox-LDL)accumulation in the vascular wall,increased inflammation of the large arteries,dysfunction of the endothelial cells(ECs)and vascular smooth muscle cells(VSMCs),which may eventually lead to the formation of ***,one of the main groups of carotenoids,have been proposed as preventive agents or adjunct therapies to prevent and slow the progression of atherosclerosis due to their cardioprotective ***,the underlying preventive mechanism of action of xanthophylls on the pathogenesis of atherosclerosis remains unclear,and clinical evidence of the effect of xanthophylls on atherosclerosis have not yet been summarized and critically *** this regard,we conducted a comprehensive literature search in four scientific databases(Pub Med,Google Scholar,Science Direct and Web of Science)and carefully analyzed the existing evidence to provide meaningful insights on the association between xanthophylls and atherosclerosis from various *** on the evidence from in vitro and in vivo studies,we explored several potential mechanisms,including antioxidant effect,anti-inflammatory effect,regulation of lipid metabolism,and modulation of ECs and VSMCs dysfunction,and we found that a clear picture of regulatory pathways of xanthophylls on atherosclerosis prevention and treatment is still *** addition,epidemiological studies suggested the possible relationship among high dietary intake of xanthophylls,high plasma/serum xanthophylls and a reduced risk of *** evidence from interventional studies investigating the effect of xanthophylls on atherosclerosis is very sparse,whilst indirect clinical evidence was only limited to astaxanthin and ***,well-designed long-term randomized controlled trials(RCTs)are highly recommended for future studies to investigate the effective dose of different

关键词： Atherosclerosis Xanthophylls Antioxidant Anti-inflammation Lipid metabolism

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Cadaverine and putrescine exposure influence carbon and nitrogen cycling genes in water and sediment of the Yellow River

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Journal of Environmental Sciences 2024年第8期142卷 236-247页

作者： Wanghong Su Qiaoling Yu Jiawei Yang Qian Han Sijie Wang Petr Hedenec Xiaochen Wang Ruijun Wan-Yan Huan Li School of Public Health Lanzhou UniversityLanzhou 730000China 2 Institute for Tropical Biodiversity and Sustainable DevelopmentUniversity Malaysia Terengganu21030Kuala NerusTerengganuMalaysia State Key laboratory of Grassland Agro-ecosystems Center for Grassland MicrobiomeCollege of pastoral agriculture science and technology Lanzhou UniversityLanzhou 730000China

The response patterns of microbial functional genes involved in biogeochemical cycles to cadaver decay is a central topic of recent environmental ***,the response mechanisms and pathways of the functional genes associated with the carbon(C)and nitrogen(N)cycling to cadaveric substances such as cadaverine and putrescine remain *** study explored the variation of functional genes associated with C fixation,C degradation and N cycling and their influencing factors under cadaverine,putrescine and mixed *** results showed only putrescine significantly increased the alpha diversity of C fixation genes,while reducing the alpha diversity of N cycling genes in *** the C cycling,the mixed treatment significantly decreased the total abundance of reductive acetyl-CoA pathway genes(i.e.,acsB and acsE)and lig gene linked to lignin degradation in water,while only significantly increasing the hydroxypropionate-hydroxybutylate cycle(i.e.,accA)gene abundance in *** the N cycling,mixed treatment significantly decreased the abundance of the nitrification(i.e.,amoB),denitrification(i.e.,nirS3)genes in water and the assimilation pathway gene(i.e.,gdhA)in *** factors(i.e.,total carbon and total nitrogen)were all negatively associated with the genes of C and N ***,cadaverine and putrescine exposure may inhibit the pathway in C fixation and N cycling,while promoting C *** findings can offer some new insight for the management of amine pollution caused by animal cadavers.

关键词： Carbon cycling Nitrogen cycling Cadaverine Putrescine Pollution management

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High-fat diet impairs gut barrier through intestinal microbiota-derived reactive oxygen species

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Science China(Life Sciences) 2024年第5期67卷 879-891页

作者： Nianyi Zeng Fan Wu Junqi Lu Xiang Li Shaomei Lin Lang Zhou Zhongwei Wang Guangyan Wu Qingfa Huang Daowen Zheng Jie Gao Shan Wu Xiaojiao Chen Muxuan Chen Fanguo Meng Haitao Shang Yan He Peng Chen Hong Wei Zhuang Li Hongwei Zhou microbiome Medicine Center Department of Laboratory MedicineZhujiang HospitalSouthern Medical UniversityGuangzhou 510282China Department of Environmental Health Guangdong Provincial Key Laboratory of Tropical Disease ResearchSchool of Public Health and Tropical MedicineSouthern Medical UniversityGuangzhou 510515China Redox Medical Center for Public Health Soochow UniversitySuzhou 215301China Precision Medicine Institute The First Affiliated HospitalSun Yat-sen UniversityGuangzhou 510080China Department of Pathophysiology Guangdong Provincial Key Laboratory of ProteomicsSchool of Basic Medical SciencesSouthern Medical UniversityGuangzhou 510515China

Gut barrier disruption is a key event in bridging gut microbiota dysbiosis and high-fat diet(HFD)-associated metabolic ***,the underlying mechanism remains *** the present study,by comparing HFD-and normal diet(ND)-treated mice,we found that the HFD instantly altered the composition of the gut microbiota and subsequently damaged the integrity of the gut *** sequencing revealed that the HFD upregulates gut microbial functions related to redox reactions,as confirmed by the increased reactive oxygen species(ROS)levels in fecal microbiota incubation in vitro and in the lumen,which were detected using in vivo fluorescence *** microbial ROS-producing capability induced by HFD can be transferred through fecal microbiota transplantation(FMT)into germ-free(GF)mice,downregulating the gut barrier tight ***,mono-colonizing GF mice with an Enterococcus strain excelled in ROS production,damaged the gut barrier,induced mitochondrial malfunction and apoptosis of the intestinal epithelial cells,and exacerbated fatty liver,compared with other low-ROS-producing Enterococcus *** administration of recombinant high-stability-superoxide dismutase(SOD)significantly reduced intestinal ROS,protected the gut barrier,and improved fatty liver against the *** conclusion,our study suggests that extracellular ROS derived from gut microbiota play a pivotal role in HFD-induced gut barrier disruption and is a potential therapeutic target for HFD-associated metabolic diseases.

关键词： fatty liver disease gut microbiota gut barrier high-fat diet oxidative stress reactive oxygen species

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Fusobacterium nucleatum-induced imbalance in microbiome-derived butyric acid levels promotes the occurrence and development of colorectal cancer

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World Journal of Gastroenterology 2024年第14期30卷 2018-2037页

作者： Qi-Long Wu Xiao-Ting Fang Xin-Xin Wan Qing-Yong Ding Yan-Jun Zhang Ling Ji Yong-Liang Lou Xiang Li School of laboratory Medicine and Life Sciences Wenzhou Medical UniversityKey Laboratory of Laboratory MedicineMinistry of EducationWenzhou 325035Zhejiang ProvinceChina Department of Health Inspection and Quarantine School of Laboratory Medicine and Life SciencesWenzhou 325035Zhejiang ProvinceChina School of laboratory Medicine and Life Sciences Wenzhou Medical UniversityZhejiang Provincial Key Laboratory of Medical GeneticsMinistry of EducationWenzhou 325035Zhejiang ProvinceChina Department of General Surgery The First Affiliated Hospital of Wenzhou Medical UniversityWenzhou 325035Zhejiang ProvinceChina School of laboratory Medicine and Life Sciences Institute of One HealthWenzhou Medical UniversityZhejiang Provincial Key Laboratory of Medical GeneticsMinistry of EducationWenzhou 325035Zhejiang ProvinceChina Department of Health Inspection and Quarantine School of Laboratory Medicine and Life SciencesInstitute of One HealthWenzhou Medical UniversityZhejiang Provincial Key Laboratory of Medical GeneticsMinistry of EducationWenzhou 325035Zhejiang ProvinceChina

BACKGROUND Colorectal cancer(CRC)ranks among the most prevalent malignant tumors *** reports suggest that Fusobacterium nucleatum(***)contributes to the initiation,progression,and prognosis of ***,a short-chain fatty acid derived from the bacterial fermentation of soluble dietary fiber,is known to inhibit various *** study is designed to explore whether *** influences the onset and progression of CRC by impacting the intestinal metabolite butyric *** To investigate the mechanism by which *** affects CRC occurrence and *** Alterations in the gut microbiota of BALB/c mice were observed following the oral administration of ***,DLD-1 and HCT116 cell lines were exposed to sodium butyrate(NaB)and *** in vitro to examine the effects on proliferative proteins and mitochondrial *** Our research indicates that the prevalence of *** in fecal samples from CRC patients is significantly greater than in healthy counterparts,while the prevalence of butyrate-producing bacteria is notably *** mice colonized with ***,the population of butyrate-producing bacteria decreased,resulting in altered levels of butyric acid,a key intestinal metabolite of *** to NaB can impair mitochondrial morphology and diminish mitochondrial membrane potential in DLD-1 and HCT116 CRC ***,this leads to modulated production of adenosine triphosphate and reactive oxygen species,thereby inhibiting cancer cell ***,NaB triggers the adenosine monophosphate-activated protein kinase(AMPK)signaling pathway,blocks the cell cycle in HCT116 and DLD-1 cells,and curtails the proliferation of CRC *** combined presence of *** and NaB attenuated the effects of the *** employing small interfering RNA to suppress AMPK,it was demonstrated that AMPK is essential for NaB’s inhibition of CRC cell *** F.n

关键词： Colorectal cancer Fusobacterium nucleatum Butyric acid Gut microbiota Adenosine monophosphate-activated protein kinase signal pathway

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Dynamic changes of rumen microbiota and serum metabolome revealed increases in meat quality and growth performances of sheep fed bio‑fermented rice straw

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Journal of Animal Science and Biotechnology 2024年第3期15卷 1207-1226页

作者： Yin Yin Kyawt Min Aung Yao Xu Zhanying Sun Yaqi Zhou Weiyun Zhu Varijakshapanicker Padmakumar Zhankun Tan Yanfen Cheng laboratory of Gastrointestinal Microbiology National Center for International Research on Animal Gut NutritionNanjing Agricultural UniversityNanjing 210095China Department of Animal Nutrition University of Veterinary ScienceNay Pyi Taw 15013Myanmar International Livestock Research Institute Nairobi 00100Kenya College of Animal Science Tibet Academy of Agricultural and Animal Husbandry SciencesLhasa 850000China State Key laboratory of Grassland Agro‑Ecosystems Center for Grassland MicrobiomeCollege of Pastoral Agriculture Science and TechnologyLanzhou UniversityLanzhou 730000China

Background Providing high-quality roughage is crucial for improvement of ruminant production because it is an essential component of their *** previous study showed that feeding bio-fermented rice straw(BF)improved the feed intake and weight gain of ***,it remains unclear why feeding BF to sheep increased their feed intake and weight ***,the purposes of this research were to investigate how the rumen micro-biota and serum metabolome are dynamically changing after feeding BF,as well as how their changes influence the feed intake,digestibility,nutrient transport,meat quality and growth performances of *** growing Hu sheep were allocated into 3 groups:alfalfa hay fed group(AH:positive control),rice straw fed group(RS:negative control)and BF fed group(BF:treatment).Samples of rumen content,blood,rumen epithelium,muscle,feed offered and refusals were collected for the subsequent *** Feeding BF changed the microbial community and rumen fermentation,particularly increasing(P<0.05)relative abundance of Prevotella and propionate production,and decreasing(P<0.05)enteric methane *** histomorphology(height,width,area and thickness)of rumen papillae and gene expression for carbohydrate trans-port(MCT1),tight junction(claudin-1,claudin-4),and cell proliferation(CDK4,Cyclin A2,Cyclin E1)were improved(P<0.05)in sheep fed ***,serum metabolome was also dynamically changed,which led to up-regulating(P<0.05)the primary bile acid biosynthesis and biosynthesis of unsaturated fatty acid in sheep fed *** a result,the higher(P<0.05)feed intake,digestibility,growth rate,feed efficiency,meat quality and mono-unsaturated fatty acid concentration in muscle,and the lower(P<0.05)feed cost per kg of live weight were achieved by feeding *** Feeding BF improved the growth performances and meat quality of sheep and reduced their feed ***,bio-fermentation of rice straw could be an innovative way for improving rum

关键词： Bio-fermentation Growth rate Meat quality Metabolome Microbiota Rice straw

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Emerging clinical relevance of microbiome in cancer:promising biomarkers and therapeutic targets

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Protein & Cell 2024年第4期15卷 239-260页

作者： Jia-Hao Dai Xi-Rong Tan Han Qiao Na Liu State Key laboratory of Oncology in South China Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and TherapyGuangdong Provincial Clinical Research Center for CancerSun Yat-sen University Cancer CenterGuangzhou 510050China

The profound influence of microbiota in cancer initiation and progression has been under the spotlight for years,leading to numerous researches on cancer microbiome entering clinical *** promising biomarkers and therapeutic targets,the critical involvement of microbiota in cancer clinical practice has been increasingly ***,recent progress in this field is *** describe the potential of tumor-associated microbiota as effective diagnostic and prognostic biomarkers,*** addition,we highlight the relationship between microbiota and the therapeutic efficacy,toxicity,or side effects of commonly utilized treatments for cancer,including chemotherapy,radiotherapy,and *** that microbial factors influence the cancer treatment outcome,we further summarize some dominating microbial interventions and discuss the hidden risks of these *** review aims to provide an overview of the applications and advancements of microbes in cancer clinical relevance.

关键词： microbiome cancer diagnosis prognosis therapy

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Reducing language barriers, promoting information absorption, and communication using fanyi

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中华医学杂志(英文版) 2024年第16期137卷 2024 Jul 22页

作者： Wang Difei Chen Guannan Li Lin Wen Shaodi Xie Zijing Luo Xiao Zhan Li Xu Shuangbin Li Junrui Wang Rui Wang Qianwen Yu Guangchuang Nanfang Hospital Southern Medical University Guangzhou Guangdong China Department of Bioinformatics School of Basic Medical Sciences Southern Medical University Guangzhou Guangdong China Comprehensive Technology Center of Lianyungang Customs Lianyungang Jiangsu China Department of Oncology The Affiliated Cancer Hospital of Nanjing Medical University &amp Jiangsu Cancer Hospital Nanjing Jiangsu China Department of laboratory Medicine Microbiome Medicine Center Zhujiang Hospital Southern Medical University Guangzhou Guangdong China

Interpreting genes of interest is essential for identifying molecular mechanisms, but acquiring such information typically involves tedious manual retrieval. To streamline this process, thefanyi package offers tools to retrieve gene information from sources like National Center for Biotechnology Information (NCBI), significantly enhancing accessibility. Additionally, understanding the latest research advancements and sharing achievements are crucial for junior researchers. However, language barriers often restrict knowledge absorption and career development. To address these challenges, we developed thefanyi package, which leverages artificial intelligence (AI)-driven online translation services to accurately translate among multiple languages. This dual functionality allows researchers to quickly capture and comprehend information, promotes a multilingual environment, and fosters innovation in academic community. Meanwhile, the translation functions are versatile and applicable beyond biomedicine research to other domains as well. Thefanyi package is freely available at https://***/YuLab-SMU/fanyi.

关键词： Multilingualism Communication barriers Translating Artificial intelligence Single-cell analysis Gene expression profiling Biological markers

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A novel engineered IL-21 receptor arms T-cell receptor-engineered T cells(TCR-T cells)against hepatocellular carcinoma

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Signal Transduction and Targeted Therapy 2024年第5期9卷 2215-2230页

作者： Wei Zhu Zhiming Zhang Jinzhang Chen Xiaolan Chen Lei Huang Xiaoyong Zhang Xuan Huang Na Ma Weikang Xu Xuan Yi Xinyu Lu Xin Fu Siwei Li Guoheng Mo Yiyue Wang Guosheng Yuan Mengya Zang Qi Li Xiaotao Jiang Yajing He Sha Wu Yukai He Yongyin Li Jinlin Hou State Key laboratory of Organ Failure Research Guangdong Provincial Key Laboratory of Viral Hepatitis ResearchDepartment of Infectious DiseasesNanfang HospitalSouthern Medical UniversityGuangzhouChina Institute of Cellular Medicine Newcastle University Medical SchoolNewcastleUK Department of Pathology The First People’s Hospital of FoshanFoshanChina Dermatology Hospital Southern Medical UniversityGuangzhouChina Department of Immunology School of Basic Medical SciencesSouthern Medical UniversityGuangzhouChina microbiome Medicine Center Department of Laboratory MedicineZhujiang HospitalSouthern Medical UniversityGuangzhouChina Key laboratory of Proteomics of Guangdong Province Demonstration Center for Experimental Education of Basic Medical Sciences of ChinaGuangzhouChina Medical College of Georgia Augusta University112015th StreetAugustaGAUSA

Strategies to improve T cell therapy efficacy in solid tumors such as hepatocellular carcinoma(HCC)are urgently *** common cytokine receptorγchain(γc)family cytokines such as IL-2,IL-7,IL-15 and IL-21 play fundamental roles in T cell development,differentiation and effector *** study aims to determine the combination effects of IL-21 in T cell therapy against HCC and investigate optimized strategies to utilize the effect of IL-21 signal in T cell *** antitumor function of AFP-specific T cell receptor-engineered T cells(TCR-T)was augmented by exogenous IL-21 in vitro and in ***-21 enhanced proliferation capacity,promoted memory differentiation,downregulated PD-1 expression and alleviated apoptosis in TCR-T after activation.A novel engineered IL-21 receptor was established,and TCR-T armed with the novel engineered IL-21 receptors(IL-21R-TCR-T)showed upregulated phosphorylated STAT3 expression without exogenous IL-21 ***-21R-TCR-T showed better proliferation upon activation and superior antitumor function in vitro and in ***-21R-TCR-T exhibited a less differentiated,exhausted and apoptotic phenotype than conventional TCR-T upon repetitive tumor antigen *** novel IL-21 receptor in our study programs powerful TCR-T and can avoid side effects induced by IL-21 systemic *** novel IL-21 receptor creates new opportunities for next-generation TCR-T against HCC.

关键词： hepatocellular TCR utilize

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