Article
Environmental Sciences
Hui Wang, Suzhen Qi, Xiyan Mu, Lilai Yuan, Yingren Li, Jing Qiu
Summary: This study found that long-term exposure to BPF can lead to liver-gut alteration and metabolic changes in zebrafish. The effects of BPF on liver metabolism were dose-dependent, affecting amino acid, purine, and one carbon metabolism in the 0.5, 5, and 50 mu g/L treatments, respectively. In addition, BPF also caused a shift in intestinal microbiome composition.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Microbiology
Pil Soo Kim, Na-Ri Shin, Jae-Bong Lee, Min-Soo Kim, Tae Woong Whon, Dong-Wook Hyun, Ji-Hyun Yun, Mi-Ja Jung, Joon Yong Kim, Jin-Woo Bae
Summary: This study comprehensively characterized gut bacterial communities in fish, revealing that the dominant phyla were Proteobacteria and Firmicutes. The gut microbiota in fish was more strongly influenced by host habitat than by host taxonomy or trophic level.
Article
Biotechnology & Applied Microbiology
Fanshu Xiao, Wengen Zhu, Yuhe Yu, Zhili He, Bo Wu, Cheng Wang, Longfei Shu, Xinghao Li, Huaqun Yin, Jianjun Wang, Philippe Juneau, Xiafei Zheng, Yongjie Wu, Juan Li, Xiaojuan Chen, Dongwei Hou, Zhijian Huang, Jianguo He, Guohuan Xu, Liwei Xie, Jie Huang, Qingyun Yan
Summary: The developmental stage of the host significantly influences the succession of gut microbiota in zebrafish, with environmental factors having less impact. Zebrafish gut microbiotas are clearly separated by developmental stages. With host development, the level of homogeneous selection governing gut microbiota succession increases.
NPJ BIOFILMS AND MICROBIOMES
(2021)
Article
Microbiology
Haile Yang, Jinming Wu, Hao Du, Hui Zhang, Junyi Li, Qiwei Wei
Summary: In aquatic animals, gut microbial communities are influenced by host development and living environments. The colonization and dynamics of these communities are affected by the environment. A study on wild fish populations found that the majority of gut microbes are shared with the water environmental microbial community, and most of them are transient.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Environmental Sciences
Wenting Lin, Kan Li, Yingjun Qin, Xing Han, Xiaohui Chen, Yuan Ren
Summary: In this study, zebrafish were exposed to the benzodiazepine drug flunitrazepam (FLZ) for 30 days, and the results showed that FLZ disrupted the balance of gut microbiota, leading to pathological damage to the intestine and increased intestinal permeability. FLZ also interfered with nucleotide metabolism and amino acid biosynthesis in the brain, causing pathological changes. This study elucidated the molecular mechanisms of FLZ on the microbiota-gut-brain axis and provided a theoretical basis for the ecological environmental risk assessment of psychoactive substances.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Biochemistry & Molecular Biology
Yo-Chia Chen, Nha-Linh Tao, Shao-Yang Hu, Hui-Yun Tsai, Sin-Chung Liao, Wei-Lun Tsai, Chun-Yi Hu
Summary: Rhizopus oryzae fungus, commonly used in Indonesia to ferment tempeh, was found to have high GABA content and improved anti-stress effects in zebrafish. Additionally, it positively impacted gut microbiota composition in the fish.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Environmental Sciences
Dongdong Song, Lizhao Chen, Siqi Zhu, Li Zhang
Summary: The presence of gut microbiota, especially arsenic-resistant bacteria such as Stenotrophomonas maltophilia, plays an important role in the accumulation and transformation of arsenic in fish. Removing the gut microbiota through antibiotic treatment significantly reduces the levels of total arsenic and arsenobetaine in the intestines and muscles of fish. Arsenic exposure alters the composition of the fish gut microbiota, with S. maltophilia becoming the dominant species. In vitro experiments demonstrated that the gut contents of untreated fish can metabolize arsenate to arsenite and organoarsenicals, while antibiotic-treated fish lose this ability.
ENVIRONMENTAL POLLUTION
(2022)
Article
Environmental Sciences
Dandan Tian, Wei Shi, Yihan Yu, Weishang Zhou, Yu Tang, Weixia Zhang, Lin Huang, Yu Han, Guangxu Liu
Summary: This study assessed the behavioral effects of enrofloxacin, a typical fluoroquinolone antibiotic, on zebrafish, and investigated its impact on the microbiota-gut-brain axis. Zebrafish exposed to 60μg/L enrofloxacin displayed abnormal anxiety-like behaviors and exhibited changes in the gut microbiota composition. Furthermore, exposure to enrofloxacin also led to alterations in the levels of certain biomarkers related to stress and anxiety in the brain. The disruption of the microbiota-gut-brain axis may contribute to enrofloxacin-induced anxiety-like behaviors in zebrafish.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Review
Microbiology
Pingping Li, Jinhua Zhang, Xiaoyi Liu, Lu Gan, Yi Xie, Hong Zhang, Jing Si
Summary: The gut microbiota plays a crucial role in regulating various aspects of host physiology, including intestinal cell differentiation, proliferation, metabolism, immune response, angiogenesis, and growth. Zebrafish models have been widely used to study the interactions between gut microbiota and hosts, offering several advantages such as short reproductive cycle, low cost, transparency, genetic similarity to humans, and ease of creating germ-free and transgenic individuals.
FRONTIERS IN MICROBIOLOGY
(2022)
Review
Cell Biology
Jae-Geun Lee, Hyun-Ju Cho, Yun-Mi Jeong, Jeong-Soo Lee
Summary: The microbiota-gut-brain axis is a bidirectional signaling pathway that mediates the interaction of the microbiota, the intestine, and the central nervous system, playing a crucial role in normal development and physiology but dysfunction is implicated in neurological disorders. Novel mechanistic insights into microbiota-gut-brain interactions can be revealed through the use of zebrafish as an animal model by combining genetic approaches and in vivo imaging capabilities.
Review
Fisheries
Francisco Vargas-Albores, Luis Rafael Martinez-Cordova, Adrian Hernandez-Mendoza, Francesco Cicala, Asuncion Lago-Leston, Marcel Martinez-Porchas
Summary: The intestinal microbiota plays a key role in fish health, affecting growth, mortality, and physiological functions. Therapeutic modulation strategies, including probiotics and prebiotics, can help alleviate dysbiosis and maintain a healthy gut microbiota in fish.
Article
Marine & Freshwater Biology
Dan Li, Weijun Sun, Haojun Lei, Xiao Li, Liping Hou, Yongzhuang Wang, Hongxing Chen, Daniel Schlenk, Guang-Guo Ying, Jingli Mu, Lingtian Xie
Summary: This study found that cyclophosphamide affects the behavior, neurotransmitters, and gut microbiota of zebrafish, which may be linked to dysfunction of neurochemicals in the brain. It also suggests that the gut-brain axis might modulate fish behaviors upon exposure to cyclophosphamide and other organic pollutants, but further research is needed to validate this hypothesis.
AQUATIC TOXICOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Pan-Pan Jia, Yi-Fan Yang, Muhammad Junaid, Huang-Jie Jia, Wei-Guo Li, De-Sheng Pei
Summary: Phages are unique viruses that can specifically infect bacteria and play important roles in microbial regulation. This review explores the methodology and functions of intestinal microbiota in the host, proposing the use of phages to infect and reduce/eliminate gut bacteria in zebrafish models. It also highlights the potential of phage therapy to control intestinal microbiota and prevent bacteria-related human diseases.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Environmental Sciences
Yiting Yang, Xueping Guo, Ting Xu, Daqiang Yin
Summary: This study aimed to investigate the effects of CBZ on gut microbiota, antibiotic resistance genes (ARGs), and intestinal health-related gene expression using a zebrafish model. The results showed that CBZ altered gut microbiota composition, affected the quantity and abundance of ARGs, and led to changes in the expression of intestinal health-related genes. Correlation analysis revealed specific bacterial genera carrying ARGs and dominant bacteria affecting intestinal health-related genes. These findings contribute to understanding the health risks of CBZ to the intestinal microecology of aquatic animals.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2023)
Article
Cell Biology
Zeng Zhang, Qiannan Peng, Dongxue Huo, Shuaiming Jiang, Chenchen Ma, Haibo Chang, Kaining Chen, Congfa Li, Yonggui Pan, Jiachao Zhang
Summary: The study found that melatonin regulates the disruption of neurotransmitter secretion through the microbiota-gut-brain axis, supporting the future development of psychotropic drugs targeting the intestinal microbiota.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Correction
Multidisciplinary Sciences
Cecile Philippe, Carlee Morency, Pier-Luc Plante, Edwige Zufferey, Rodrigo Achigar, Denise M. Tremblay, Genevieve M. Rousseau, Adeline Goulet, Sylvain Moineau
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Frank Oechslin, Xiaojun Zhu, Moira B. Dion, Rong Shi, Sylvain Moineau
Summary: Endolysins, produced by bacteriophages, exhibit high diversity and play a crucial role in phage-host adaptation and evolution. Genetic exchange of endolysin genes showed minimal fitness costs when recipient and donor phages infected the same bacterial strain, but increased costs when infection occurred in different strains or species. Homologous recombination between co-infecting phages allowed for natural exchange of endolysins, while adaptive mutations enabled endolysins to adapt to new phage/host environments. These findings highlight the remarkable ability of phage lytic systems to recombine and adapt, explaining their diversity and mosaicism. This knowledge has implications for the engineering of antimicrobial agents.
Article
Ecology
Martin Guillemet, Helene Chabas, Antoine Nicot, Francois Gatchich, Enrique Ortega-Abboud, Cornelia Buus, Lotte Hindhede, Genevieve M. Rousseau, Thomas Bataillon, Sylvain Moineau, Sylvain Gandon
Summary: This experimental study demonstrates how coevolution between bacteria and phages, along with competition among bacterial genotypes, leads to increased diversity of bacterial CRISPR immunity. The negative-frequency-dependent selection generated by coevolution plays a crucial role in maintaining host resistance diversity and driving the emergence of new resistance mutations. Furthermore, the asymmetries in competitive abilities among different host genotypes contribute to the evolution of hosts, allowing even the fittest genotypes to escape extinctions through the acquisition of new CRISPR immunity.
NATURE ECOLOGY & EVOLUTION
(2022)
Article
Microbiology
K. M. Damitha Gunathilake, Denise M. Tremblay, Pier-Luc Plante, Ellen C. Jensen, Kenneth W. Nickerson, Sylvain Moineau
Summary: Phage SN1 infects Sphaerotilus natans and Pseudomonas aeruginosa strains. Its genome is similar to that of Pseudomonas phage M6 and contains similar base-modifying genes.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2022)
Article
Biochemistry & Molecular Biology
Tue Kjaergaard Nielsen, Laura Milena Forero-Junco, Witold Kot, Sylvain Moineau, Lars Hestbjerg Hansen, Leise Riber
Summary: RNA and DNA modifications are common in all organisms and play various roles. Recent advancements in sequencing techniques have led to increased interest in studying nucleotide modifications. The use of third generation sequencing platforms allows direct detection of modified bases. These modifications are particularly prevalent in bacteriophage genomes, where they primarily function to protect DNA from degradation.
Article
Virology
Amos Lucky Mhone, Angela Makumi, Josiah Odaba, Linda Guantai, K. M. Damitha Gunathilake, Stephanie Loignon, Caroline Wangari Ngugi, Juliah Khayeli Akhwale, Sylvain Moineau, Nicholas Svitek
Summary: This study analyzed the stability of 10 different Salmonella-enteritidis phages isolated from Kenyan poultry farms, finding that they were relatively stable within a range of pHs and temperatures. The phages showed different survival times in simulated gastric and intestinal fluids, and different water sources had varying effects on their viability. These phages may be administered to chickens through drinking water and can survive in the gastrointestinal tract to prevent salmonellosis in poultry.
Article
Microbiology
Andre da Silva Xavier, Alessandra G. de Melo, Connor G. Hendrich, Denise M. Tremblay, Genevieve M. Rousseau, Pier-Luc Plante, Katrina T. Forest, Poliane Alfenas-Zerbini, Caitilyn Allen, Sylvain Moineau
Summary: Ralstonia solanacearum is a destructive plant pathogen that causes lethal bacterial wilt disease. Phages that kill R. solanacearum could offer effective and environmentally friendly wilt disease control, but only if the bacterium cannot easily evolve resistance. Research has shown that the resistance of Ralstonia solanacearum to phages is related to its Type II Secretion System (T2SS), and the phage also affects the pathogenicity of R. solanacearum.
Article
Ecology
Torben Solbeck Rasmussen, Anna Kirstine Koefoed, Ling Deng, Musemma K. Muhammed, Genevieve M. Rousseau, Witold Kot, Sabrina Sprotte, Horst Neve, Charles M. A. P. Franz, Axel Kornerup Hansen, Finn Kvist Vogensen, Sylvain Moineau, Dennis Sandris Nielsen
Summary: The CRISPR-Cas system of Eggerthella lenta has been shown to target and cleave foreign DNA in vitro and acquire new immunities in vivo using gnotobiotic mice. However, this system only provides partial immunity in the gut.
Article
Microbiology
Pauline Misson, Emma Bruder, Jeffrey K. Cornuault, Marianne De Paepe, Pierre H. Nicolas, Gaelle Demarre, Goran H. Lakisic, Marie-Agnes Petit, Olivier H. Espeli, Francois Lecointe
Summary: AIEC strains, particularly LF82, have the ability to adhere to the intestinal epithelium and survive in macrophages. LF82 carries five complete prophages, with Gally being the most active one. However, LF82 can block the lytic cycle of the Gally prophage in macrophages, suggesting its evolved strategy for survival.
Article
Nanoscience & Nanotechnology
Abolfazl Alizadeh Sahraei, Barbara Mejia Bohorquez, Denise Tremblay, Sylvain Moineau, Alain Garnier, Faical Larachi, Patrick Lague
Summary: This study aimed to evaluate the interactions of peptides with quartz as potential flotation collectors, in order to find biofriendly alternatives to biohazardous chemical reagents in mining practices. The results showed that the flexibility of peptide chains directly affected their adsorption behavior. Overall, this study is of great significance for the rational design of peptide sequences for mineral processing.
ACS APPLIED MATERIALS & INTERFACES
(2023)
Review
Microbiology
Cecile Philippe, Jeffrey K. Cornuault, Alessandra G. de Melo, Rachel Morin-Pelchat, Alice P. Jolicoeur, Sylvain Moineau
Summary: Over the past few decades, there has been a growing interest in lactic acid bacteria (LAB) due to their industrial use, health benefits, and ecological importance. However, phage infection poses a significant risk to LAB production and use. This review discusses the defense systems employed by LAB against phage infections and the strategies used by phages to overcome these defenses. It also explores the impact of phage-host interactions on their evolution and highlights the potential of novel defense systems discovered in other bacteria for phage research in LAB.
FEMS MICROBIOLOGY REVIEWS
(2023)
Article
Virology
Zoe A. Campbell, Nelly Njiru, Amos Lucky Mhone, Angela Makumi, Sylvain Moineau, Nicholas Svitek
Summary: Women and men in Kenya who keep chickens want to earn income, provide healthy food for their families, and expand their businesses. This study recommends design opportunities for a veterinary product that contains bacteriophages (phages) targeting pathogenic Salmonella strains, based on qualitative research. The findings highlight the interplay between gender and chicken production systems, and suggest that phages combined with oral Newcastle disease vaccine or used as a treatment for fowl typhoid could benefit both men and women in different production systems. The study also emphasizes the need for a phage product to have both preventive and treatment capabilities to compete with antibiotics in the Kenyan market.
Article
Engineering, Electrical & Electronic
S. Nazila Hosseini, Mohammad Makhdoumi Akram, Partha Sarati Das, Vahid Khojasteh Lazarjan, Denise M. Tremblay, Sylvain Moineau, Younes Messaddeq, Benoit Gosselin
Summary: This article introduces a new biosensor prototype that uses microscale electrodes to measure impedance, pH, and temperature changes caused by bacterial growth. The prototype utilizes multiple sensor geometries to optimize sensitivity and includes custom circuits such as an integrated CMOS lock-in amplifier for multifrequency impedance measurement. The system successfully monitors bacterial growth by measuring impedance, pH, and temperature, and demonstrates precise and accurate measurements.
IEEE SENSORS JOURNAL
(2023)
Article
Biochemistry & Molecular Biology
Liang Cui, Seetharamsing Balamkundu, Chuan-Fa Liu, Hong Ye, Jacob Hourihan, Astrid Rausch, Christopher Hauss, Emelie Nilsson, Matthias Hoetzinger, Karin Holmfeldt, Weijia Zhang, Laura Martinez-Alvarez, Xu Peng, Denise Tremblay, Sylvain Moinau, Natalie Solonenko, Matthew B. Sullivan, Yan-Jiun Lee, Andrew Mulholland, Peter R. Weigele, Valerie de Crecy-Lagard, Peter C. Dedon, Geoffrey Hutinet
Summary: Bacteriophages and bacteria constantly evolve new molecular tools in their arms race, and this study identifies various modifications of 7-deazaguanines and their related enzymes.
NUCLEIC ACIDS RESEARCH
(2023)
Review
Biochemical Research Methods
Pei-Ru Chen, Peng-Fei Xia
Summary: Carbon dioxide plays a crucial role in mitigating global climate change and supporting life on Earth. Synthetic biology and metabolic engineering offer a promising approach to enhance CO2 fixation by combining the advantages of autotrophic and heterotrophic organisms. This article reviews the current progress in constructing synthetic CO2 fixation pathways, discusses the underlying design principles and challenges, and provides insights into the future of carbon recycling through engineered synthetic carbon fixation pathways.
CURRENT OPINION IN BIOTECHNOLOGY
(2024)
