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Integrated analysis of gut microbiome and host immune responses in COVID-19

Frontiers of Medicine 2022, Volume 16, Issue 2,   Pages 263-275 doi: 10.1007/s11684-022-0921-6

Abstract: Emerging evidence indicates that the gut microbiome contributes to the host immune response to infectiousHere, to explore the role of the gut microbiome in the host immune responses in COVID-19, we conductedWe found that the diversity of the gut microbiome was reduced in severe/critical COVID-19 cases comparedWe identified the abundance of some gut microbes altered post-SARS-CoV-2 infection and related to diseaseIn addition, an integrative analysis of gut microbiome and the transcriptome of peripheral blood mononuclear

Keywords： COVID-19     SARS-COV-2     gut microbiome     immune response    

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Intestinal Epithelial Axin1 Deficiency Protects Against Colitis via Altered Gut Microbiota

Shari Garrett,Yongguo Zhang,Yinglin Xia,Jun Sun,

Engineering doi: 10.1016/j.eng.2023.06.007

Abstract: Intestinal homeostasis is maintained by specialized host cells and the gut microbiota.Here, we aim to demonstrate that intestinal Axin1 determines gut homeostasis and host response to inflammationThese data suggest non-colitogenic effects driven by the gut microbiome.Further mechanistic studies using specific Axin1 mutations elucidating how Axin1 modulates the microbiome

Keywords： Axin1     Bacteria     Microbiome inflammation     Inflammatory bowel disease     Immunity     Microbiome     Paneth cells     Akkermansia    

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Genomic Mutations within the Host Microbiome: Adaptive Evolution or Purifying Selection Review

Jiachao Zhang,Rob Knight,

Engineering 2023, Volume 20, Issue 1,   Pages 96-102 doi: 10.1016/j.eng.2021.11.018

Abstract: More human microbiome research projects—particularly those that explore genomic mutations withinthe microbiome—will be launched in the next decade.This review focuses on the coevolution of microbes within a microbiome, which shapes strain-level diversity

Keywords： Gut microbiota     Genomic mutations     Adaptive evolution     Purifying selection     Single-nucleotide variants    

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Enhancing Clinical Efficacy through the Gut Microbiota: A New Field of Traditional Chinese Medicine Review

Yan-Meng Lu, Jiao-Jiao Xie, Cong-Gao Peng, Bao-Hong Wang, Kai-Cen Wang, Lan-Juan Li

Engineering 2019, Volume 5, Issue 1,   Pages 40-49 doi: 10.1016/j.eng.2018.11.013

Abstract: With increasing evidence indicating that the gut microbiota is important in host health and may be associatedof TCM components, it may now be possible to assess the effects of TCMs from the perspective of the gutThe gut microbiota functions within four major physiological pathways as follows: It participates inobesity, and type 2 diabetes, and elucidates the underlying mechanisms, with a focus on changes in the gutrequired with more advanced experimental design in order to reveal the interactions between TCMs and the gut

Keywords： Traditional Chinese medicines     Gut microbiome     Fatty liver disease     Ulcerative colitis     Obesity     Diabetes    

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Microbiome subsets determine tumor prognosis and molecular characteristics of clear-cell renal cell carcinoma: a multi-center integrated analysis of microbiome, metabolome, and transcriptome data

Frontiers of Medicine doi: 10.1007/s11684-023-1029-3

Abstract: Microbiome subsets determine tumor prognosis and molecular characteristics of clear-cell renal cell carcinoma: a multi-center integrated analysis of microbiome, metabolome, and transcriptome data

Keywords： tumor prognosis molecular     Microbiome subsets determine     center analysis microbiome     transcriptome data    

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Gut microbial balance and liver transplantation: alteration, management, and prediction

Xinyao Tian, Zhe Yang, Fangzhou Luo, Shusen Zheng

Frontiers of Medicine 2018, Volume 12, Issue 2,   Pages 123-129 doi: 10.1007/s11684-017-0563-2

Abstract: Importantly, the resulting alteration of gut microbiota aggravates graft dysfunctions during the processThis article reviews the research progress for gut microbial alterations and liver transplantation.Especially, this work also evaluates research on the management of gut microbial alteration and the predictionIn addition, we propose possible directions for research on gut microbial alteration during liver transplantation

Keywords： gut microbial balance     liver transplantation     ischemia–reperfusion     acute rejection    

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Understanding building-occupant-microbiome interactions toward healthy built environments: A review

Shuai Li, Zhiyao Yang, Da Hu, Liu Cao, Qiang He

Frontiers of Environmental Science & Engineering 2021, Volume 15, Issue 4, doi: 10.1007/s11783-020-1357-3

Abstract: Abstract • The built environment, occupants, and microbiomes constitute an integrated ecosystem. • This review summarizes research progress which has focused primarily on microbiomes. • Critical research needs include studying impacts of occupant behaviors on microbiomes. Built environments, occupants, and microbiomes constitute a system of ecosystems with extensive interactions that impact one another. Understanding the interactions between these systems is essential to develop strategies for effective management of the built environment and its inhabitants to enhance public health and well-being. Numerous studies have been conducted to characterize the microbiomes of the built environment. This review summarizes current progress in understanding the interactions between attributes of built environments and occupant behaviors that shape the structure and dynamics of indoor microbial communities. In addition, this review also discusses the challenges and future research needs in the field of microbiomes of the built environment that necessitate research beyond the basic characterization of microbiomes in order to gain an understanding of the causal mechanisms between the built environment, occupants, and microbiomes, which will provide a knowledge base for the development of transformative intervention strategies toward healthy built environments. The pressing need to control the transmission of SARS-CoV-2 in indoor environments highlights the urgency and significance of understanding the complex interactions between the built environment, occupants, and microbiomes, which is the focus of this review.

Keywords： Microbiome     Built Environment     Occupant     Health    

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Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Frontiers of Environmental Science & Engineering 2022, Volume 16, Issue 5, doi: 10.1007/s11783-022-1543-6

Abstract:

● Riverine microbiomes exhibited hyperlocal variation within a single transect.

Keywords： Microbiome     Freshwater     Taxon accumulation curve     Community assembly    

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Human microbiome and prostate cancer development: current insights into the prevention and treatment

Solmaz Ohadian Moghadam, Seyed Ali Momeni

Frontiers of Medicine 2021, Volume 15, Issue 1,   Pages 11-32 doi: 10.1007/s11684-019-0731-7

Abstract: The human microbiome may influence prostate cancer development.several studies have focused on the effect of prostate infections as well as the composition of the human microbiomeIn healthy individuals, the microbiome plays a crucial role in the maintenance of homeostasis of bodyFurthermore, we discuss strategies to target the microbiome for risk assessment, prevention, and treatment

Keywords： microbiome     prostate cancer     prevention     treatment     molecular pathological epidemiology (MPE)     biomarker    

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Mechanistic and therapeutic advances in non-alcoholic fatty liver disease by targeting the gut microbiota

Ruiting Han, Junli Ma, Houkai Li

Frontiers of Medicine 2018, Volume 12, Issue 6,   Pages 645-657 doi: 10.1007/s11684-018-0645-9

Abstract: disease because of the intricate role of gut microbiota in maintaining human health and disease formationMoreover, gut microbiota is even regarded as a “metabolic organ” that play complementary roles to thatAs a result, gut microbiota have been emerging as a novel therapeutic target for NAFLD by manipulatingIn this review, we summarized the most recent advances in gut microbiota-mediated mechanisms, as wellas gut microbiota-targeted therapies on NAFLD.

Keywords： gut microbiota     NAFLD     obesity     insulin resistance     bile acids     probiotic    

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Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Frontiers of Environmental Science & Engineering 2022, Volume 16, Issue 6, doi: 10.1007/s11783-022-1560-5

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Alterations in the Gut Microbiome in Liver Recipients with Post-transplant Diabetes Mellitus Article

Qi Ling, Yuqiu Han, Yue Ma, Xiaosen Wang, Zheng Zhu, Jingyu Wang, Jiaying Cao, Lin Xiaohan, Jun Wang, Baohong Wang

Engineering 2023, Volume 31, Issue 12,   Pages 98-111 doi: 10.1016/j.eng.2023.09.006

Abstract: high-throughput shotgun metagenomics sequencing and metabolomics profiling, we characterized the intestinal microbiomeIn summary, the faecal microbiome and metabolome differed between PTDM and non-PTDM patients, which were

Keywords： Post-transplant diabetes mellitus     Tacrolimus     Metagenomics     Metabolomics    

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Calorie restriction and its impact on gut microbial composition and global metabolism

Xiaojiao Zheng, Shouli Wang, Wei Jia

Frontiers of Medicine 2018, Volume 12, Issue 6,   Pages 634-644 doi: 10.1007/s11684-018-0670-8

Abstract: In the present review, we focus on the general effect of CR on gut microbiota composition and globalAnalyses of the gut microbial and host metabolisms revealed that most host microbial co-metabolites wereThe observed phenotypes and the further verification of the direct link between gut microbiota and metabolomeThus, improved gut microbiota composition and metabolome are potential biomarkers for determining the

Keywords： caloric restriction     gut microbiota     metabolome    

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Comparative analysis of impact of human occupancy on indoor microbiomes

Frontiers of Environmental Science & Engineering 2021, Volume 15, Issue 5, doi: 10.1007/s11783-020-1383-1

Abstract:

• Exposure to indoor microbiomes is a public health concern in educational facilities.

Keywords： Built environment     Indoor microbiome     Occupant     Building     Sequencing    

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ADT-OH improves intestinal barrier function and remodels the gut microbiota in DSS-induced colitis

Frontiers of Medicine   Pages 972-992 doi: 10.1007/s11684-023-0990-1

Abstract: Owing to the increasing incidence and prevalence of inflammatory bowel disease (IBD) worldwide, effective and safe treatments for IBD are urgently needed. Hydrogen sulfide (H2S) is an endogenous gasotransmitter and plays an important role in inflammation. To date, H2S-releasing agents are viewed as potential anti-inflammatory drugs. The slow-releasing H2S donor 5-(4-hydroxyphenyl)-3H-1,2-dithiole-3-thione (ADT-OH), known as a potent therapeutic with chemopreventive and cytoprotective properties, has received attention recently. Here, we reported its anti-inflammatory effects on dextran sodium sulfate (DSS)-induced acute (7 days) and chronic (30 days) colitis. We found that ADT-OH effectively reduced the DSS-colitis clinical score and reversed the inflammation-induced shortening of colon length. Moreover, ADT-OH reduced intestinal inflammation by suppressing the nuclear factor kappa-B pathway. In vivo and in vitro results showed that ADT-OH decreased intestinal permeability by increasing the expression of zonula occludens-1 and occludin and blocking increases in myosin II regulatory light chain phosphorylation and epithelial myosin light chain kinase protein expression levels. In addition, ADT-OH restored intestinal microbiota dysbiosis characterized by the significantly increased abundance of Muribaculaceae and Alistipes and markedly decreased abundance of Helicobacter, Mucispirillum, Parasutterella, and Desulfovibrio. Transplanting ADT-OH-modulated microbiota can alleviate DSS-induced colitis and negatively regulate the expression of local and systemic proinflammatory cytokines. Collectively, ADT-OH is safe without any short-term (5 days) or long-term (30 days) toxicological adverse effects and can be used as an alternative therapeutic agent for IBD treatment.

Keywords： inflammatory bowel disease     ADT-OH     intestinal permeability     gut microbiota    

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Title Author Date Type Operation

Integrated analysis of gut microbiome and host immune responses in COVID-19

Journal Article

Intestinal Epithelial Axin1 Deficiency Protects Against Colitis via Altered Gut Microbiota

Shari Garrett,Yongguo Zhang,Yinglin Xia,Jun Sun,

Journal Article

Genomic Mutations within the Host Microbiome: Adaptive Evolution or Purifying Selection

Jiachao Zhang,Rob Knight,

Journal Article

Enhancing Clinical Efficacy through the Gut Microbiota: A New Field of Traditional Chinese Medicine

Yan-Meng Lu, Jiao-Jiao Xie, Cong-Gao Peng, Bao-Hong Wang, Kai-Cen Wang, Lan-Juan Li

Journal Article

Microbiome subsets determine tumor prognosis and molecular characteristics of clear-cell renal cell carcinoma: a multi-center integrated analysis of microbiome, metabolome, and transcriptome data

Journal Article

Gut microbial balance and liver transplantation: alteration, management, and prediction

Xinyao Tian, Zhe Yang, Fangzhou Luo, Shusen Zheng

Journal Article

Understanding building-occupant-microbiome interactions toward healthy built environments: A review

Shuai Li, Zhiyao Yang, Da Hu, Liu Cao, Qiang He

Journal Article

Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Journal Article

Human microbiome and prostate cancer development: current insights into the prevention and treatment

Solmaz Ohadian Moghadam, Seyed Ali Momeni

Journal Article

Mechanistic and therapeutic advances in non-alcoholic fatty liver disease by targeting the gut microbiota

Ruiting Han, Junli Ma, Houkai Li

Journal Article

Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Journal Article

Alterations in the Gut Microbiome in Liver Recipients with Post-transplant Diabetes Mellitus

Qi Ling, Yuqiu Han, Yue Ma, Xiaosen Wang, Zheng Zhu, Jingyu Wang, Jiaying Cao, Lin Xiaohan, Jun Wang, Baohong Wang

Journal Article

Calorie restriction and its impact on gut microbial composition and global metabolism

Xiaojiao Zheng, Shouli Wang, Wei Jia

Journal Article

Comparative analysis of impact of human occupancy on indoor microbiomes

Journal Article

ADT-OH improves intestinal barrier function and remodels the gut microbiota in DSS-induced colitis

Journal Article