Article
Microbiology
Jessica Chopyk, Ana Georgina Cobian Guemes, Claudia Ramirez-Sanchez, Hedieh Attai, Melissa Ly, Marcus B. Jones, Roland Liu, Chenyu Liu, Kun Yang, Xin M. Tu, Shira R. Abeles, Karen Nelson, David T. Pride
Summary: This study investigated the effects of two commonly used antibiotics, azithromycin and amoxicillin, on the human gut microbiome. The results showed clear and sustained impacts of these antibiotics on the gut microbial community, particularly the significant alterations in Bifidobacterium species in response to azithromycin. Importantly, no significant changes were observed in other members of the microbial community compared to the control group.
Article
Microbiology
Xianghui Liang, Zhipeng Zhang, Hai Wang, Xingbang Lu, Wen Li, Haoran Lu, Ayan Roy, Xuejuan Shen, David M. Irwin, Yongyi Shen
Summary: Early-day prophylactic antibiotic treatment has adverse effects on the gut microbiome and disease resistance in chickens. Long-term antibiotics treatment slows down chicken growth, while short-term treatment increases growth rate, but not significantly.
Article
Biotechnology & Applied Microbiology
Shaochen Wang, Lin Wei, Yuejiao Gao, Yufeng Rong, Zhengqi Zha, Yunbin Lyu, Zhiyang Feng
Summary: The aim of this study was to evaluate the diversity and potential for horizontal transfer of amikacin resistance genes from the human gut. The researchers identified two novel amikacin resistance genes, contributing to the in-depth study of the diversity and horizontal transfer potential of these genes in the microbiome of the human gut.
JOURNAL OF APPLIED MICROBIOLOGY
(2022)
Article
Public, Environmental & Occupational Health
Isaac Raplee, Lacey Walker, Lei Xu, Anil Surathu, Ashok Chockalingam, Sharron Stewart, Xiaomei Han, Rodney Rouse, Zhihua Li
Summary: The study aimed to confirm gut microbiota shifts in an animal model of antibiotic treatment and found that antibiotic therapy reduced detectable species of bacteria and increased opportunistic pathogens in the gut microbiota. Furthermore, antibiotic treatment selected for antibiotic-resistant gene enriched subpopulations for many of these pathogens.
ANTIMICROBIAL RESISTANCE AND INFECTION CONTROL
(2021)
Review
Environmental Sciences
Katrina Marie Sta Ana, Jonalyn Madriaga, Maria Pythias Espino
Summary: This article summarizes the research on beta-lactam antibiotics and beta-lactam antibiotic resistant bacteria and genes in Asian lake and river waters. It discusses methods for analyzing these antibiotics in water and the need for comprehensive investigations regarding their impact on aquatic biota. Studies have shown the presence of beta-lactam antibiotics in ng/L concentrations in Asian aquatic environments, but more research is needed in this area.
ENVIRONMENTAL POLLUTION
(2021)
Editorial Material
Biology
Carolina Oliveira de Santana, Pieter Spealman, Gabriel G. Perron
Summary: The global spread of antibiotic resistance may be caused by various factors, not only the previous assumption of antibiotic overuse in agriculture and medicine.
Article
Biology
Lea Pradier, Stephanie Bedhomme
Summary: Antibiotic consumption alone does not fully explain the persistence of antibiotic resistance, as shown by the widespread presence of aminoglycoside-modifying enzyme (AME) genes in bacteria from various ecological contexts. This study demonstrates that the prevalence of AME-carrying bacteria is influenced by ecological factors more than antibiotic use. Analysis of resistome compositions reveals the importance of exchanges between soil, wildlife, and human samples in the dissemination of AME genes. Intervention strategies should consider both reducing antibiotic use and controlling exchanges between ecosystems.
Article
Microbiology
Anees A. Sindi, Sarah M. Alsayed, Ibrahim Abushoshah, Diyaa H. Bokhary, Nisreen R. Tashkandy
Summary: This study compares the gut microbiota profiles of CRE-positive and CRE-negative stool samples, finding that CRE-positive samples have lower diversity and are dominated by a few taxonomic clusters such as Enterococcus, Sphingomonas, and Staphylococcus. The most abundant taxon in CRE-positive samples is Pseudomonas, indicating resistance to various antimicrobial drugs and reduced microbial diversity.
Article
Microbiology
Evgenii Olekhnovich, Artem B. Ivanov, Vladimir Ulyantsev, Elena N. Ilina
Summary: Fecal microbiota transplantation (FMT) is used to treat intestinal diseases, but its therapeutic mechanism and donor bacteria colonization in the recipient's intestine remain unclear. Metagenomic analysis of FMT experiments can provide insights into the relationship between the host and gut microbiota. The enrichment of successful gut microbes with antibiotic resistance genes may play a key role in the colonization and redistribution of recipient gut microbiota during FMT.
Article
Microbiology
Fredrika Rajer, Lisa Allander, Philip A. Karlsson, Linus Sandegren
Summary: β-lactam antibiotics are the first choice for the treatment of bacterial infections, but the prevalence of β-lactamases limits their effectiveness. Combining β-lactam antibiotics with β-lactamase inhibitors can restore treatment efficacy. However, clinical isolates often carry multiple β-lactamases and other resistance genes, which impact the development of resistance.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2022)
Article
Environmental Sciences
Chao-Feng Li, Yi-Rong Zhang, Zhen-Chao Tan, Hui-Juan Xu, Cheng-Lan Liu
Summary: Tebuconazole, consisting of two enantiomers, has a high detectable rate in the soil and may pose a risk to the microbiota community. Antibiotic resistance genes (ARGs) are considered emerging environmental contaminants and can be transferred between microbiota in the soil. The enantioselective effects of tebuconazole on microbiota community and ARGs in the soil and earthworm gut are largely unknown.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Microbiology
Xiaoya Wei, Jiacong Gao, Congjuan Xu, Xiaolei Pan, Yongxin Jin, Fang Bai, Zhihui Cheng, Iain L. Lamont, Daniel Pletzer, Weihui Wu
Summary: This study reveals the response mechanism of P. aeruginosa to murepavadin and provides a promising antibiotic combination for the treatment of P. aeruginosa infections.
MICROBIOLOGY SPECTRUM
(2023)
Article
Microbiology
Xiaoya Wei, Jiacong Gao, Congjuan Xu, Xiaolei Pan, Yongxin Jin, Fang Bai, Zhihui Cheng, Iain L. Lamont, Daniel Pletzer, Weihui Wu
Summary: This study reveals the response mechanism of Pseudomonas aeruginosa to murepavadin and provides a promising antibiotic combination for the treatment of P. aeruginosa infections.
MICROBIOLOGY SPECTRUM
(2023)
Article
Biotechnology & Applied Microbiology
Lorenzo Nissen, Camilla Aniballi, Flavia Casciano, Alberto Elmi, Domenico Ventrella, Augusta Zannoni, Andrea Gianotti, Maria Laura Bacci
Summary: The first weeks of life are crucial for the microbial colonization of piglets' gastrointestinal tract. This study used an in vitro model to evaluate the impact of different concentrations of amoxicillin in milk on the piglets' colon microbiota. The results showed that amoxicillin had an influence on the microbiota and metabolites production, but did not alter the overall biodiversity. There was an increase in resistant species.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Infectious Diseases
Ashley N. Crotteau, Veronica B. Hubble, Santiana A. Marrujo, Anne E. Mattingly, Roberta J. Melander, Christian Melander
Summary: The Centers for Disease Control and Prevention (CDC) reported five million deaths associated with antimicrobial resistance in 2019. Acinetobacter baumannii, a Gram-negative bacterial pathogen, is considered an urgent threat. Previous research has shown that 2-aminoimidazole (2-AI) adjuvants can enhance the activity of macrolide antibiotics against A. baumannii. This study identified several of these adjuvants that also sensitize A. baumannii to aminoglycoside antibiotics.
Article
Immunology
Caoimhe M. K. Lynch, Caitlin S. M. Cowan, Thomaz F. S. Bastiaanssen, Gerard M. Moloney, Nigel Theune, Marcel van de Wouw, Eva Florensa Zanuy, Ana Paula Ventura-Silva, Martin G. Codagnone, Francisca Villalobos-Manriquez, Matilde Segalla, Fatma Koc, Catherine Stanton, Paul Ross, Timothy G. Dinan, Gerard Clarke, John F. Cryan
Summary: Numerous studies have shown that the gut microbiota plays a crucial role in neurodevelopment and behavior. Early-life exposure to antibiotics has been associated with increased risk of immune and metabolic diseases. Targeted antibiotic-induced disruption of the microbiota during critical developmental periods has enduring effects on physiology and behavior. This study demonstrates that microbiota disruption during early life alters the structure and function of the caecal microbiome, as well as immune cells and neurophysiology in adolescence. However, the effects on behavior are limited and subtle, suggesting the importance of the gut microbiota during critical windows of development.
BRAIN BEHAVIOR AND IMMUNITY
(2023)
Review
Microbiology
Claudia Marcela Arenas-Gomez, Enriqueta Garcia-Gutierrez, Juan S. Escobar, Paul D. Cotter
Summary: The healthy human gut is a balanced ecosystem where interactions between host cells and representatives of the gut microbiota play a vital role in maintaining gut functionality and overall health. Impairment of the gut epithelium can lead to various negative consequences, but certain components and metabolites of the gut microbiota can contribute to its repair and regeneration. Targeted modulation of the gut microbiota may be a potential therapeutic approach to improve gut homeostasis and overall health outcomes.
CRITICAL REVIEWS IN MICROBIOLOGY
(2023)
Review
Microbiology
Aaron M. Walsh, John Leech, Curtis Huttenhower, Hue Delhomme-Nguyen, Fiona Crispie, Christian Chervaux, Paul D. Cotter
Summary: Molecular technologies, such as high-throughput sequencing, have greatly expanded our understanding of the microbial world, particularly in the context of food fermentation and its impact on human health. This review discusses the history of fermented foods, the advancements in molecular approaches for studying them, and the influence of fermented foods on the gut microbiome. It also explores the potential of bioinformatics to enhance our understanding of these foods.
FEMS MICROBIOLOGY REVIEWS
(2023)
Article
Biochemistry & Molecular Biology
Caitlin O'Mahony, Adam Clooney, Siobhan F. Clarke, Monica Aguilera, Aisling Gavin, Donjete Simnica, Mary Ahern, Aine Fanning, Maurice Stanley, Raul Cabrera Rubio, Elaine Patterson, Tatiana Marques, Rebecca Wall, Aileen Houston, Amr Mahmoud, Michael W. Bennett, Catherine Stanton, Marcus J. Claesson, Paul D. Cotter, Fergus Shanahan, Susan A. Joyce, Silvia Melgar
Summary: Environmental factors, such as westernised diets and alterations to the gut microbiota, are considered risk factors for inflammatory bowel diseases (IBD). This study found that feeding mice a high-fat diet protected them from developing colitis and colitis-associated cancer (CAC) by modulating gut microbiota and bile acid metabolism, which then influenced vitamin D targeting pathways.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Microbiology
Yasmin Neves Vieira Sabino, Paul David Cotter, Hilario C. Mantovani
Summary: Bovine mastitis is a significant economic burden in the dairy industry, with Staphylococcus aureus being a prominent pathogen. Traditional antibiotic treatment has led to the emergence of antibiotic-resistant strains, necessitating the exploration of alternative therapeutic approaches focusing on virulence factors. Anti-virulence therapies can reduce the development of resistance and minimize impacts on the host commensal microbiota.
MICROBIOLOGICAL RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Shane E. E. Somers, Gabrielle L. L. Davidson, Crystal N. N. Johnson, Michael S. S. Reichert, Jodie M. S. Crane, R. Paul Ross, Catherine Stanton, John L. L. Quinn
Summary: This study investigates the gut microbiota of wild great tits and finds that they are closely related to the host's state and the environment, especially for nestlings. The study also discovers that the gut microbiota is most sensitive during early development and is associated with environmental factors such as reproductive timing and hatching location. These findings are crucial for understanding the role of gut microbiota in the fitness of animals.
Article
Food Science & Technology
Serena Boscaini, Peter Skuse, Kanishka N. Nilaweera, John F. Cryan, Paul D. Cotter
Summary: This review provides an overview of the beneficial effects of whey protein (WP) and its components on human health, particularly in controlling obesity and its comorbidities. WP consumption positively impacts energy balance and obesity-related parameters, primarily through modulation in adipose tissue metabolism and changes that occur in the gastrointestinal tract. Furthermore, WP also has a positive impact on gut microbiota, mood, and behavior. This review emphasizes the importance of WP supplementation in preventing or treating obesity and highlights areas for further research.
TRENDS IN FOOD SCIENCE & TECHNOLOGY
(2023)
Review
Food Science & Technology
Kevin Linehan, R. Paul Ross, Catherine Stanton
Summary: Bovine colostrum contains various bioactive components that can be used for the development of functional foods, nutraceuticals, and pharmaceuticals in veterinary and human health applications. It is safe for all age groups and can be used to promote health and improve various diseases. The global market for colostrum-based products has grown significantly due to increased milk production and novel processing technologies. This review provides an overview of the bioactive components in bovine colostrum, the processing techniques used to produce high-value products, and recent studies on its applications in veterinary and human health.
ANNUAL REVIEW OF FOOD SCIENCE AND TECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Amel Sami, Imad Elimairi, C. Anthony Ryan, Catherine Stanton, Dhrati Patangia, R. Paul Ross
Summary: There are an estimated 6-10 million smokeless tobacco (Toombak) users in Sudan, the majority being males. This study explores the oral microbiome in Toombak users and non-users, finding significant differences in the abundance of certain bacterial and fungal genera. Toombak users carry an altered oral microbiome that may contribute to the development and progression of oral cancer, while also increasing the potential for a poorer prognosis.
SCIENTIFIC REPORTS
(2023)
Article
Biology
Stephen R. Stockdale, Andrey N. Shkoporov, Ekaterina V. Khokhlova, Karen M. Daly, Siobhan A. McDonnell, Orla O' Regan, James A. Nolan, Thomas D. S. Sutton, Adam G. Clooney, Feargal J. Ryan, Donal Sheehan, Aonghus Lavelle, Lorraine A. Draper, Fergus Shanahan, R. Paul Ross, Colin Hill
Summary: Viruses play important roles in the human microbiome, but our understanding of the human gut virome is limited due to previous sequencing requirements that introduced amplification bias. In this study, without amplification bias, we analyzed the viromes of healthy controls, Crohn's disease patients, and ulcerative colitis patients longitudinally. The results revealed and emphasized the interpersonal variability of the human gut virome, challenging our ability to identify disease associations.
COMMUNICATIONS BIOLOGY
(2023)
Article
Microbiology
Neda Nezam-Abadi, Christopher J. R. Turkington, Lorraine A. Draper, Andrey N. Shkoporov, R. Paul Ross, Colin Hill
Summary: Here, we present the draft genome sequence of Legionella pneumophila subsp. pneumophila strain DSM 25199, a serogroup 1 strain with a genome size of 3,426,844 bp. The assembly consists of 24 contigs with an N-50 of 300,843 bp.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Review
Microbiology
Angela Sessitsch, Steve Wakelin, Michael Schloter, Emmanuelle Maguin, Tomislav Cernava, Marie-Christine Champomier-Verges, Trevor C. Charles, Paul D. Cotter, Ilario Ferrocino, Aicha Kriaa, Pedro Lebre, Don Cowan, Lene Lange, Seghal Kiran, Lidia Markiewicz, Annelein Meisner, Marta Olivares, Inga Sarand, Bettina Schelkle, Joseph Selvin, Hauke Smidt, Leo van Overbeek, Gabriele Berg, Luca Cocolin, Yolanda Sanz, Wilson Lemos Fernandes, S. J. Liu, Matthew Ryan, Brajesh Singh, Tanja Kostic
Summary: Microbiomes play crucial roles in ecosystem functioning, supporting planetary health through nutrient cycling, climate regulation, and water filtration. They are closely associated with complex multicellular organisms and contribute to the health of their hosts. However, there is still limited understanding of microbiome transfer and connectivity.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
(2023)
Article
Food Science & Technology
Yang Chen, He Gao, Jianxin Zhao, R. Paul Ross, Catherine Stanton, Hao Zhang, Wei Chen, Bo Yang
Summary: This review comprehensively summarizes the epidemic trend and pathogenesis of inflammatory bowel disease (IBD), and highlights the potential regulatory mode and mechanisms of lactic acid bacteria (LAB) in alleviating IBD. LAB exhibits numerous advantages, such as producing bioactive metabolites, regulating gut immunity, protecting the intestinal mechanical barriers, inhibiting oxidative damage, and restoring unbalanced gut microbiota. The review also provides recommendations for screening effective LAB, controlling optimal intake, encapsulating LAB, investigating mechanisms, and improving clinical study design to improve the lives of IBD patients.
TRENDS IN FOOD SCIENCE & TECHNOLOGY
(2023)
Article
Infectious Diseases
Dhrati V. Patangia, Ghjuvan Grimaud, Kevin Linehan, R. Paul Ross, Catherine Stanton
Summary: This study investigated the impact of different drying off methods on the microbiota and resistome profile in colostrum and milk samples from cows. The results showed that the use of antibiotics during drying off increased microbial diversity and antibiotic resistance genes in milk. In contrast, the non-antibiotic group had a lower abundance of mastitis-causing pathogens and was associated with specific genera. These findings support the use of non-antibiotic alternatives for drying off in cows.
Article
Food Science & Technology
Han Du, Yichen Lin, Catherine Stanton, Davor Daniloski, Emanuele Zannini, R. Paul Ross, Song Miao
Summary: In this study, red lentil isolate protein (RLPI) was heated at different pH values for different time periods, and its structure and emulsifying properties were analyzed. The results showed that the molecular weight of RLPI decreased over time and formed fibrillar and particulate aggregates at different pH levels. The fibrillar aggregates had higher emulsifying capabilities due to their structure and surface charge, and formed stronger interactions at pH 2.
FOOD STRUCTURE-NETHERLANDS
(2023)