Article
Environmental Sciences
Wendy B. Morgado-Gamero, Alexander Parody, Jhorma Medina, Laura A. Rodriguez-Villamizar, Dayana Agudelo-Castaneda
Summary: This study revealed the presence of multi-antibiotic resistant bacterial bioaerosols emitted by a landfill and the surrounding area, highlighting the potential impact of bacterial bioaerosols on public health. The findings suggest the high concentrations of antibiotic-resistant bacteria in bioaerosols, especially for fine particles, which pose a threat to human health. Additionally, there is a concern about the possible spread of antibiotic multi-resistance genes in the environment due to interchange between pathogenic and non-pathogenic species in landfill facilities.
ENVIRONMENTAL POLLUTION
(2021)
Review
Environmental Sciences
Weiying Li, Guosheng Zhang
Summary: Bacterial antibiotic resistance in water environments is a growing concern, with the horizontal transfer of antibiotic resistance genes (ARGs) being a major factor. This study provides an analysis and summary of the various factors influencing ARG horizontal transfer, and discusses the deficiencies in existing research and future directions.
ENVIRONMENTAL RESEARCH
(2022)
Review
Microbiology
Luminita Gabriela Marutescu, Mihaela Jaga, Carmen Postolache, Florica Barbuceanu, Nicoleta Manuela Milita, Luminita Maria Romascu, Heike Schmitt, Ana Maria de Roda Husman, Paria Sefeedpari, Stefanie Glaeser, Peter Kaempfer, Patrick Boerlin, Edward Topp, Gratiela Gradisteanu Pircalabioru, Mariana Carmen Chifiriuc, Marcela Popa
Summary: This review examines the impact of animal farming and manure application on the antibiotic resistance pool in the environment. The results suggest a correlation between the use of antibiotics in animal farming and the prevalence of antibiotic resistance bacteria. Manure fertilized soils have higher levels of antibiotic resistance bacteria and genes, and different manure processing techniques have varying effects on antibiotic residues and resistance. Further research is needed to understand the contribution of manure to antibiotic resistance.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Multidisciplinary Sciences
Jian Ji, Shang Wu, Lina Sheng, Jiadi Sun, Yongli Ye, Yiyun Zhang, Yinzhi Zhang, Yajun Gong, Jianzhong Zhou, Xiulan Sun
Summary: The study utilized the LC-MS/MS metabolomics platform to analyze the metabolic profiles of 138 strains of Salmonella, and found that these profiles were related to the serotypes, sources, processing stages, and antibiotic resistance patterns of the bacteria. Specifically, Salmonella Derby with drug resistance to ceftriaxone exhibited a different metabolic status with changes in glutathione biosynthesis. Exogenous glutathione oxidized or citrulline, but not glutathione reduced, restored the susceptibility of multidrug-resistant Salmonella Derby to ceftriaxone. This study establishes a strategy based on functional metabolomics to manage the survival of antibiotic-resistant bacteria.
Review
Environmental Sciences
Hongliang Yin, Yiwei Cai, Guiying Li, Wanjun Wang, Po Keung Wong, Taicheng An
Summary: After entering water environments, antibiotic resistance bacteria and genes undergo various transformations, possibly leading to stressed or non-stressed states, resulting in tolerance or persistence phenotypes that make the antibiotic resistance problem more challenging and complex.
CRITICAL REVIEWS IN ENVIRONMENTAL SCIENCE AND TECHNOLOGY
(2022)
Review
Environmental Sciences
Dong Ding, Bin Wang, Xiaoan Zhang, Junxi Zhang, Huanhuan Zhang, Xinxin Liu, Zhan Gao, Zengli Yu
Summary: Antibiotic resistance poses a significant threat to human health, and reducing the spread and burden of antibiotic resistance requires implementing control strategies.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2023)
Article
Environmental Sciences
C. Saravanakumar, C. S. Neethu, R. Purvaja, G. Sunantha, R. S. Robin, R. Ramesh
Summary: This study investigated the co-occurrence of resistance and virulence in aquatic bacteria and found that strains from polluted rivers and canals exhibited higher resistance and virulence. Furthermore, there were differences in the distribution of virulence genes in different aquatic environments, with secretion system proteins and motility-related genes being the most abundant.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Microbiology
Qiulong Yan, Siyi Zhang, Shenghui Li, Guangyang Wang, Aiqin Zhang, Taiyang Jin, Yue Zhang, Qingbo Lv, Manchun Xiao, Yuanyuan Sun, Xiang Li, Song Cui, Rui Li, Xiaochi Ma, Chao Wang, Xiangge Tian, Xiaohui Duan, Yi Xin, Xianhai Mao, Yufang Ma
Summary: This study isolated and genomically characterized bacterial strains from human bile, revealing the presence of unique functional genes in bile strains compared to gut isolates. The bile isolates also harbored various antibiotic resistance genes and demonstrated capabilities for bile salt deconjugation or biotransformation.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Environmental Sciences
Dawoon Jung, Koshi Machida, Yoichi Nakao, Jeffrey S. Owen, Shan He, Tomonori Kindaichi, Akiyoshi Ohashi, Yoshiteru Aoi
Summary: Most microbes from natural habitats cannot be cultured in the laboratory using standard methods, including sponge-associated microbes. Using advanced cultivation methods such as continuous-flow bioreactors and in situ cultivation, previously uncultivated marine sponge-associated bacteria were successfully isolated. These methods have distinct key mechanisms that allow for the cultivation of phylogenetically and physiologically diverse fastidious bacteria compared with conventional methods.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Immunology
Suzanne de Oliveira Nunes, Bruno Francesco Rodrigues Oliveira, Marcia Giambiagi-deMarval, Marinella Silva Laport
Summary: Dogs play important roles in our society, hence the importance of their health becomes crucial. Staphylococcus species are frequently isolated from canine skin and are recognized as zoonotic agents. They are becoming increasingly resistant to antimicrobials and capable of producing biofilm, which enhances their virulence and resistance. Sponge-associated bacteria have potential as sources of antimicrobial substances, which could be used in clinical settings.
MICROBIAL PATHOGENESIS
(2021)
Article
Environmental Sciences
Yang Feng, Minghuan Bai, Yi Geng, Defang Chen, Xiaoli Huang, Ping Ouyang, Hongrui Guo, Zhicai Zuo, Chao Huang, Weimin Lai
Summary: The study revealed that sturgeon-derived Streptococcus iniae in Sichuan exhibited widespread antibiotic resistance, posing a potential risk for transmission and infection. The findings underscore the importance of prevention and control measures in Sichuan, particularly in the upper reaches of the Yangtze River, to combat Streptococcus iniae infections and reduce the risk of highly resistant strains spreading downstream.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2021)
Article
Engineering, Environmental
Dingchang Li, Jingfeng Gao, Huihui Dai, Wanjun Duan, Zhiqi Wang, Zhixiang Zhou
Summary: The study revealed the migration and accumulation of i/e-ARGs during aerobic granulation process, and provided several meaningful comprehensions on i/e-ARGs dissemination during practical AGS application.
CHEMICAL ENGINEERING JOURNAL
(2021)
Article
Multidisciplinary Sciences
Irene Anna Lambraki, Melanie Cousins, Tiscar Graells, Anais Leger, Patrik Henriksson, Stephan Harbarth, Max Troell, Didier Wernli, Peter Sogaard Jorgensen, Andrew P. Desbois, Carolee A. Carson, Elizabeth Jane Parmley, Shannon Elizabeth Majowicz
Summary: This study identified the factors influencing antimicrobial resistance (AMR) in the European food system and places for intervention through two workshops. The findings highlight the complexity of the AMR problem and the challenge in finding long-term solutions. The study also identifies relevant leverage points in the system for intervention.
Article
Environmental Sciences
Hong Bai, Liang-Ying He, Dai-Ling Wu, Fang-Zhou Gao, Min Zhang, Hai-Yan Zou, Mao-Sheng Yao, Guang-Guo Ying
Summary: The study indicated the presence of antibiotic resistance genes in the air from animal farms, posing potential exposure risks. The airborne pathogens and resistance genes can spread through atmospheric dispersion modeling, potentially endangering the health of workers and surrounding residents.
ENVIRONMENT INTERNATIONAL
(2022)
Article
Environmental Sciences
Sonia Gupta, T. R. Sreekrishnan, Shaikh Ziauddin Ahammad
Summary: Sewage treatment plants (STPs) are considered hotspots for antibiotic resistance, but the impact of heavy metal contamination on the dispersion of antibiotic resistance in STPs is not well understood. This study reveals that the removal technologies used in STPs are inefficient in completely removing metal and antibiotic resistance, posing a risk of co-selection of antibiotic resistance. The study also identifies significant correlations between heavy metals, metal and antibiotic resistance, and integrons, suggesting a potential mechanism for the exacerbation of antibiotic resistance in the presence of heavy metals.
ENVIRONMENTAL POLLUTION
(2022)
Article
Toxicology
Janneke Elzinga, Menno Grouls, Guido J. E. J. Hooiveld, Meike van der Zande, Hauke Smidt, Hans Bouwmeester
Summary: There is a need for standardized in vitro models of the human intestinal tract to study intestinal health without using animals. The Caco-2 cell line is a widely accepted and characterized model for studying intestinal drug transport, host-microbe interactions, and toxicity. We investigated the effect of different experimental variables on gene expression using transcriptome analysis of Caco-2 cells grown on permeable membranes. Our analysis revealed a weak association between experimental variables and gene expression, possibly due to heterogeneity in cell culture practice and inadequate reporting. This highlights the need for improved reporting protocols and serves as a template for future comparative studies.
ARCHIVES OF TOXICOLOGY
(2023)
Article
Engineering, Environmental
Sara N. Jimenez-Volkerink, Joaquim Vila, Maria Jordan, Cristina Minguillon, Hauke Smidt, Magdalena Grifoll
Summary: Polar biotransformation products have been found to cause an increase in genotoxicity after the bioremediation of PAH-contaminated soils. The microorganisms and mechanisms underlying their further biodegradation have not been fully understood.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Chemistry, Medicinal
Ton That Huu Dat, Georg Steinert, Nguyen Thi Kim Cuc, Pham Viet Cuong, Hauke Smidt, Detmer Sipkema
Summary: Recent reviews have shown that sponge-associated bacteria are valuable sources of structurally diverse secondary metabolites with potent biological activities, making these microbial communities promising for new drug candidates. However, accessing the overall diversity of secondary metabolite biosynthetic potential in bacteria is challenging due to the difficulty in culturing the majority of bacteria in the laboratory. This study investigates the diversity of secondary metabolite biosynthetic gene clusters in metagenomes of bacterial communities associated with three different sponge species and identifies numerous potential gene clusters for the production of novel compounds.
Article
Gastroenterology & Hepatology
D. J. M. Barnett, M. F. Endika, C. E. Klostermann, F. Gu, C. Thijs, A. Nauta, H. A. Schols, H. Smidt, I. C. W. Arts, J. Penders
Summary: The infant gut microbiota is influenced by antibiotic exposures and prebiotic oligosaccharides found in breast milk. This study analyzed the stool microbiota of 1023 one-month-old infants and found that breastfeeding and antibiotic exposure both decrease gut microbial diversity, but have different effects on microbiota composition. Other factors such as C-section, homebirth, siblings, and exposure to animals also impact microbiota composition. Understanding these factors can help protect and promote a healthy infant gut microbiota.
Article
Agricultural Engineering
M. Atasoy, W. T. Scott Jr., K. van Gijn, J. J. Koehorst, H. Smidt, A. A. M. Langenhoff
Summary: Optimizing bioreactor performance is crucial for sustainable and energy-efficient removal of micropollutants in tertiary treatment. The resident microbial community plays a significant role in bioreactor performance, hence a deeper understanding of community dynamics is essential. By characterizing the microbial communities in three different bioreactors used for organic matter removal, an interdependency between bioreactor performance and microbial community profile was observed. A generalized Lotka-Volterra model was established to understand the interactions in the microbial community and develop strategies for improving bioreactor performance.
BIORESOURCE TECHNOLOGY
(2023)
Article
Psychology, Developmental
Yangwenshan Ou, Clara Belzer, Hauke Smidt, Carolina de Weerth
Summary: The study investigated the development of gut microbiota in children during the first 14 years of life and its relation to mental health problems in puberty. The analysis of fecal microbiota composition revealed the presence of four distinct microbial clusters in puberty. Prevotella 9 and Faecalibacterium were found to be associated with externalizing behavior and social anxiety, respectively. Further studies are needed to validate these findings and explore the underlying mechanisms.
EUROPEAN CHILD & ADOLESCENT PSYCHIATRY
(2023)
Review
Pediatrics
Desiree F. Baaleman, Carrie A. M. Wegh, Tessa J. M. de Leeuw, Faridi S. van Etten-Jamaludin, Elaine E. Vaughan, Margriet H. C. Schoterman, Clara Belzer, Hauke Smidt, Merit M. Tabbers, Marc A. Benninga, Ilan J. N. Koppen
Summary: A systematic review was conducted to estimate normal reference values for defecation frequency and stool consistency in healthy children up to age 4. The results showed that younger infants have a higher frequency of defecation compared to young children, and the type of feeding and age also have an impact on defecation frequency and stool consistency.
JOURNAL OF PEDIATRICS
(2023)
Article
Microbiology
Martha F. Endika, David J. M. Barnett, Cynthia E. Klostermann, Henk A. Schols, Ilja C. W. Arts, John Penders, Arjen Nauta, Hauke Smidt, Koen Venema
Summary: Antibiotic exposure disrupts infant gut microbiota, but the ability to recover from this disruption depends on the type of antibiotic. This study investigated the effect of two common infant prebiotics, 2'-fucosyllactose (2'-FL) and galacto-oligosaccharides (GOS), on the resilience of the gut microbiota after exposure to amoxicillin/clavulanate. The results showed that the prebiotics supported the recovery of the microbiota and restored the production of beneficial fatty acids.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Andrea Aldas-Vargas, Jannigje G. G. Kers, Hauke Smidt, Huub H. M. Rijnaarts, Nora B. B. Sutton
Summary: Groundwater in The Netherlands is the main source of drinking water, but pesticide presence threatens its quality. Biodegradation is a natural process that can help remove pesticides. However, the oligotrophic groundwater conditions may limit biodegradation due to the lack of microbial communities capable of degrading pesticides. In this study, bioaugmentation with enriched mixed inocula was used to enhance pesticide biodegradation, and the effect of different redox conditions on biodegradation was observed.
Article
Ecology
Asimenia Gavriilidou, Burak Avci, Anastasia Galani, Michelle A. Schorn, Colin J. Ingham, Thijs J. G. Ettema, Hauke Smidt, Detmer Sipkema
Summary: Using genome-centric metagenomics, researchers revealed the phylogenomic placement of the candidate phylum Dadabacteria and predicted the metabolism of sponge-associated members. The results showed that these strains are aerobic heterotrophs capable of synthesizing amino acids, vitamins and cofactors, degrading complex carbohydrates, and exhibiting host-specific gene adaptations. Additionally, fluorescence in situ hybridization revealed the morphology and lifestyle of a member of Ca. Desulfobacterota.
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
Gastroenterology & Hepatology
Taojun Wang, Nils Leibrock, Caroline M. Plugge, Hauke Smidt, Erwin G. Zoetendal
Summary: Methanogens, reductive acetogens, and sulfate-reducing bacteria interact with each other in gut ecosystems, and their interactions may vary depending on environmental conditions.
Article
Microbiology
Caifang Wen, Mirelle Geervliet, Hugo de Vries, Lluis Faba, Petra J. Roubos-van den Hil, Kerstin Skovgaard, Huub F. J. Savelkoul, Henk A. Schols, Jerry M. Wells, Edwin Tijhaar, Hauke Smidt
Summary: The study found that adding a fermented feed additive - rye overgrown with mycelium of Agaricus subrufescens can modulate gut microbiota and immune system development in pigs. This supplementation may contribute to improving the health of piglets during the weaning transition period and reducing the use of antibiotics.
Article
Environmental Sciences
Sara N. Jimenez-Volkerink, Maria Jordan, Hauke Smidt, Cristina Minguillon, Joaquim Vila, Magdalena Grifoll
Summary: By studying a specific microbial consortium in PAH-contaminated soils, it was discovered that the degradation of the carcinogenic compound BaAQ may occur through the Baeyer-Villiger monooxygenase (BVMOs) pathway, and that horizontal gene transfer may play a significant role in this degradation process.
SCIENCE OF THE TOTAL ENVIRONMENT
(2024)
Article
Gastroenterology & Hepatology
Yangwenshan Ou, Eline Rots, Clara Belzer, Hauke Smidt, Carolina de Weerth
Summary: An increasing number of studies have shown the connection between gut microbiota and mental health. This study investigated the composition of gut microbiota in low-risk children during early puberty, and explored the behavioral associations with gut microbiota composition and metabolites. The study also explored the potential role of sex in these associations.