Xenobiotics shape the physiology and gene expression of the active human gut microbiome

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Items 301–400 of 811

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2. Chronic Effects of Dietary Pesticides on the Gut Microbiome and Neurodevelopment
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3. Bacterial extracellular vesicles at the interface of gut microbiota and immunity
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4. Bacterial multispecies studies and microbiome analysis of a plant disease
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5. Gut microbial and short-chain fatty acid profiles in adults with chronic constipation before and after treatment with lubiprostone
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6. Metabolic impact of persistent organic pollutants on gut microbiota
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7. Animal gut microbiome mediates the effects of antibiotic pollution on an artificial freshwater system
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8. Exploring the microbiome in health and disease
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9. Catabolic Machinery of the Human Gut Microbes Bestow Resilience Against Vanillin Antimicrobial Nature
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10. A distributed cell division counter reveals growth dynamics in the gut microbiota
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11. Drug–Exposome Interactions: The Next Frontier in Precision Medicine
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12. Oregano Essential Oils Mediated Intestinal Microbiota and Metabolites and Improved Growth Performance and Intestinal Barrier Function in Sheep
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13. Systematic genomic analysis reveals the complementary aerobic and anaerobic respiration capacities of the human gut microbiota
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14. Obesity and the gut microbiome: pathophysiological aspects
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15. New technologies for developing phage-based tools to manipulate the human microbiome
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16. Using bioreactors to study the effects of drugs on the human microbiota
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17. Discovery and mining of enzymes from the human gut microbiome
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18. The Microbiome in Mental Health: Potential Contribution of Gut Microbiota in Disease and Pharmacotherapy Management
    Stephanie A. Flowers, Vicki L. Ellingrod · 2015 · Pharmacotherapy The Journal of Human Pharmacology and Drug Therapy
19. Utilizing de Bruijn graph of metagenome assembly for metatranscriptome analysis
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20. Acute Radiation Syndrome and the Microbiome: Impact and Review
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21. Evidences for a Role of Gut Microbiota in Pathogenesis and Management of Epilepsy
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22. Synthetic gut microbiome: Advances and challenges
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23. Symbiotic and antibiotic interactions between gut commensal microbiota and host immune system
    Mantas Kazimieras Malys, Laura Campbell, Naglis Malys · 2015 · Medicina
24. AMON: annotation of metabolite origins via networks to integrate microbiome and metabolome data
    M. Shaffer, Kumar Thurimella, Kevin D. Quinn, Katrina Doenges, Xuhong Zhang, Samantha S. Bokatzian, Nichole A. Reisdorph, Catherine Lozupone · 2019 · BMC Bioinformatics
25. The gut-microbiome as a target for the treatment of schizophrenia: A systematic review and meta-analysis of randomised controlled trials of add-on strategies
    Minichino, Amedeo, Brondino, Natascia, Solmi, Marco, Del Giovane, Cinzia, Fusar-Poli, Paolo, Burnet, Philip, Cipriani, Andrea, Lennox, Belinda R. · 2021 · Schizophrenia Research
26. The gastrointestinal microbiome – Functional interference between stomach and intestine
    Loris Riccardo Lopetuso, Franco Scaldaferri, Francesco Franceschi, Antonio Gasbarrini · 2014 · Best Practice & Research Clinical Gastroenterology
27. Human Oral Buccal Microbiomes Are Associated with Farmworker Status and Azinphos-Methyl Agricultural Pesticide Exposure
    Ian B. Stanaway, James C. Wallace, Ali Shojaie, William C. Griffith, Sungwoo Hong, Carly S. Wilder, Foad H. Green, Jesse M. Tsai, Misty Knight, Tomomi W. Workman et al. · 2016 · Applied and Environmental Microbiology
28. Understanding antimicrobial discovery and resistance from a metagenomic and metatranscriptomic perspective: advances and applications
    Jonathan Asante, John Osei Sekyere · 2019 · Environmental Microbiology Reports
29. The success of fecal microbial transplantation in Clostridium difficile infection correlates with bacteriophage relative abundance in the donor: a retrospective cohort study
    Heekuk Park, Michael Laffin, Juan Jovel, Braden Millan, Jae Eun Hyun, Naomi Hotte, Dina H. Kao, Karen L. Madsen · 2019 · Gut Microbes
30. Bacteriophages: Uncharacterized and Dynamic Regulators of the Immune System
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31. Nitrate from diet might fuel gut microbiota metabolism: Minding the gap between redox signaling and inter-kingdom communication
    Bárbara S. Rocha, João A.N. Laranjinha · 2020 · Free Radical Biology and Medicine
32. Chemical Metabolism of Xenobiotics by Gut Microbiota
    Radislav Nakov, Tsvetelina Veselinova Velikova · 2020 · Current Drug Metabolism
33. Microbial abundance and diversity investigations along rivers: Current knowledge and future directions
    Kexin Li, Jinming Hu, Ting Li, Feng Liu, Juan Tao, Jiang Liu, Zejin Zhang, Xia Luo, Linfeng Li, Yongcui Deng et al. · 2021 · Wiley Interdisciplinary Reviews Water
34. Understanding and Modulating Mammalian-Microbial Communication for Improved Human Health
    Mani, Sridhar, Boelsterli, Urs A., Redinbo, Matthew R. · 2014 · Annual Review of Pharmacology and Toxicology
35. Deciphering the gut microbiome in neurodegenerative diseases and metagenomic approaches for characterization of gut microbes
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36. Carotenoids in Health as Studied by Omics-Related Endpoints
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37. How to Determine the Role of the Microbiome in Drug Disposition
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38. Exposure to anti-seizure medications impact growth of gut bacterial species and subsequent host response
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39. The emerging science of precision medicine and pharmacogenomics for Parkinson's disease
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40. Candida albicans accelerates atherosclerosis by activating intestinal hypoxia-inducible factor2α signaling
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41. A perspective on general direction and challenges facing antimicrobial peptides
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42. Larval exposure to polychlorinated biphenyl 126 (PCB-126) causes persistent alteration of the amphibian gut microbiota
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43. COMAN: a web server for comprehensive metatranscriptomics analysis
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44. Quantitative systems pharmacology and the personalized drug–microbiota–diet axis
    Ines Thiele, Catherine M. Clancy, Almut Heinken, Ronan M. T. Fleming · 2017 · Current Opinion in Systems Biology
45. When FLOW-FISH met FACS: Combining multiparametric, dynamic approaches for microbial single-cell research in the total environment
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46. Culture-enriched human gut microbiomes reveal core and accessory resistance genes
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47. The Emerging Role of the Gut Virome in Health and Inflammatory Bowel Disease: Challenges, Covariates and a Viral Imbalance
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48. Phylogenetics and the Human Microbiome
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49. Functional Classification of the Gut Microbiota: The Key to Cracking the Microbiota Composition Code
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50. Plant community and soil conditions individually affect soil microbial community assembly in experimental mesocosms
    Aspen T. Reese, Kyrstin Lulow, Lawrence A. David, Justin P. Wright · 2017 · Ecology and Evolution
51. Enrichment and identification of small proteins in a simplified human gut microbiome
    Petruschke, Hannes, Anders, John, Stadler, Peter F., Jehmlich, Nico, von Bergen, Martin · 2020 · Journal of Proteomics
52. Grow With the Challenge – Microbial Effects on Epithelial Proliferation, Carcinogenesis, and Cancer Therapy
    Jakob von Frieling, Christine Fink, Jacob Hamm, Kenneth Klischies, Michael Förster, Thomas C. G. Bosch, Thomas Roeder, Philip C Rosenstiel, Felix Sommer · 2018 · Frontiers in Microbiology
53. High-throughput bacterial functional genomics in the sequencing era
    Andrew N Gray, Byoung‐Mo Koo, Anthony L. Shiver, Jason M. Peters, Hendrik Osadnik, Carol A. Gross · 2015 · Current Opinion in Microbiology
54. Comparative Genomic Analyses and CRISPR-Cas Characterization of Cutibacterium acnes Provide Insights Into Genetic Diversity and Typing Applications
    Natalia Cobián, Allison Garlet, Claudio Hidalgo-Cantabrana, Rodolphe Barrangou · 2021 · Frontiers in Microbiology
55. Dynamics in the microbial cytome — single cell analytics in natural systems
    Christin Koch, Hauke Harms, Susann Müller · 2014 · Current Opinion in Biotechnology
56. Investigation of Host–Gut Microbiota Modulation of Therapeutic Outcome
    Lian Yee Yip, Eric Chun Yong Chan · 2015 · Drug Metabolism and Disposition
57. Editor’s Highlight: Organophosphate Diazinon Altered Quorum Sensing, Cell Motility, Stress Response, and Carbohydrate Metabolism of Gut Microbiome
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59. Microbiome of Total Versus Live Bacteria in the Gut of Rex Rabbits
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60. Non-nutritive sweeteners and their impacts on the gut microbiome and host physiology
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61. Analysis of fecal microbiota in patients with functional constipation undergoing treatment with synbiotics
    Huang, Lin Sheng, Kong, Cheng, Gao, Ren Yuan, Yan, Xuebing, Yu, Hong Jing, Wen, Bin, Zhu, Qi, Shen, Tong Yi, Sun, Zhen Liang, Qin, Huan Long · 2018 · European Journal of Clinical Microbiology & Infectious Diseases
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    Melissa Latorre · 2015 · World Journal of Gastroenterology
63. Conducting metagenomic studies in microbiology and clinical research
    Tiphaine C. Martin, Alessia Visconti, Tim D. Spector, Mario Falchi · 2018 · Applied Microbiology and Biotechnology
64. A novel therapeutic concern: Antibiotic resistance genes in common chronic diseases
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65. Turning Participatory Microbiome Research into Usable Data: Lessons from the American Gut Project
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66. Study on the ability of partially hydrolyzed guar gum to modulate the gut microbiota and relieve constipation
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68. The gut microbiome and frailty
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69. The promise and challenge of cancer microbiome research
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70. Microbes and mental health: Can the microbiome help explain clinical heterogeneity in psychiatry?
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71. Influence of Altered Gut Microbiota Composition on Aging and Aging-Related Diseases
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72. P-glycoprotein multidrug transporter in inflammatory bowel diseases: More questions than answers
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73. Airway “Resistotypes” and Clinical Outcomes in Bronchiectasis
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76. The complex interplay of diet, xenobiotics, and microbial metabolism in the gut: Implications for clinical outcomes
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77. Interplay between gut microbiota, its metabolites and human metabolism: Dissecting cause from consequence
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87. Xenobiotics and the Human Gut Microbiome: Metatranscriptomics Reveal the Active Players
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