Article
Multidisciplinary Sciences
Ilaria Di Lelio, Giobbe Forni, Giulia Magoga, Matteo Brunetti, Daniele Bruno, Andrea Becchimanzi, Maria G. De Luca, Martina Sinno, Eleonora Barra, Marco Bonelli, Sarah Frusciante, Gianfranco Diretto, Maria C. Digilio, Sheridan L. Woo, Gianluca Tettamanti, Rosa Rao, Matteo Lorito, Morena Casartelli, Matteo Montagna, Francesco Pennacchio
Summary: Plants generate energy flows through natural food webs, driven by competition for resources among organisms. The interaction between tomato plants and an insect is influenced by their respective microbiotas. The presence of the soil fungus Trichoderma afroharzianum in tomato plants negatively affects the development and survival of the lepidopteran pest Spodoptera littoralis by altering the larval gut microbiota. This study highlights the potential impact of biocontrol agents on the ecological sustainability of agricultural systems.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Biochemistry & Molecular Biology
Sander Wuyts, Renato Alves, Maria Zimmermann-Kogadeeva, Suguru Nishijima, Sonja Blasche, Marja Driessen, Philipp E. Geyer, Rajna Hercog, Ece Kartal, Lisa Maier, Johannes B. Mueller, Sarela Garcia Santamarina, Thomas Sebastian B. Schmidt, Daniel C. Sevin, Anja Telzerow, Peter Treit, Tobias Wenzel, Athanasios Typas, Kiran R. Patil, Matthias Mann, Michael Kuhn, Peer Bork
Summary: Multi-omics analyses were used to study the molecular changes in microbial communities under different conditions. Using five omics layers, the study mapped the molecular response of a synthetic community of gut bacteria to three non-antibiotic drugs. The results showed that the omics methods were consistent in estimating relative species abundances and complemented each other in capturing functional changes.
MOLECULAR SYSTEMS BIOLOGY
(2023)
Article
Microbiology
Oleg Karaduta, Zeljko Dvanajscak, Boris Zybailov
Summary: The gut microbiome plays a crucial role in maintaining host health by contributing to homeostasis, enhancing digestive efficiency, and aiding in the development of the immune system. Therapeutic manipulation of the gut microbiota through dietary changes, prebiotics, probiotics, and fecal microbiome transplantation is being increasingly recognized. Utilizing multi-omics technologies, particularly metaproteomics, is providing new insights into host-microbiota interactions.
Review
Neurosciences
Lucia Boeri, Francesca Donnaloja, Marzia Campanile, Lorenzo Sardelli, Marta Tunesi, Federica Fusco, Carmen Giordano, Diego Albani
Summary: The role of human microbiota in modulating neurological pathologies, particularly in relation to epilepsy, is a fascinating area of research. It has been found that intestinal bacteria mainly influence seizure frequency by releasing neurotransmitters and inflammatory mediators. Integrated multi-omics approaches could be essential in understanding the complex microbial contribution to epilepsy pathophysiology.
NEUROBIOLOGY OF DISEASE
(2022)
Article
Chemistry, Analytical
Maria Munoz-Benavent, Ana Elena Perez-Cobas, Carlos Garcia-Ferris, Andres Moya, Amparo Latorre
Summary: The study of insect-associated microbial communities is crucial in agriculture due to the role insects play as pests. Recent focus on insect gut microbiome highlights their potential in biotechnology and biomedicine, with functional approaches providing insights into their metabolic capabilities. Understanding these microbial communities is essential for their exploitation and future perspectives in this field.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2021)
Review
Immunology
Mine Altinli, Esther Schnettler, Mathieu Sicard
Summary: Mosquitoes not only transmit arboviruses but also carry mosquito-associated insect-specific viruses. Recent advances in viral metagenomics have revealed the abundance of viruses without visible symptoms. Studies have shifted towards investigating single-stranded RNA mosquito viruses and their interference with arboviruses in female adults.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Ana G. Abril, Monica Carrera, Angeles Sanchez-Perez, Tomas G. Villa
Summary: Food allergies have been increasing dramatically in developed countries. It is well-established that maintaining a specific microbial consortium in the gastrointestinal tract is crucial for food tolerance. Recent advances in '-omics' technologies and systems biology offer promising approaches to understand the relationship between gut microbiome and food allergies. This review summarizes the current knowledge in the field of food allergies and discusses the future advances that will be achieved by applying proteomic techniques to study the GI tract microbiome.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Gastroenterology & Hepatology
Keli Yang, Junkun Niu, Tao Zuo, Yang Sun, Zhilu Xu, Whitney Tang, Qin Liu, Jingwan Zhang, Enders K. W. Ng, Simon K. H. Wong, Yun Kit Yeoh, Paul K. S. Chan, Francis K. L. Chan, Yinglei Miao, Siew C. Ng
Summary: This study reveals that obese individuals, especially those with T2DM, have decreased gut viral richness and diversity compared to lean controls. There are altered viral taxonomic composition and weakened viral-bacterial correlations in obesity, and the gut virome may play a role in the development of obesity and T2DM.
Article
Gastroenterology & Hepatology
Berenike Kircher, Sabrina Woltemate, Frank Gutzki, Dirk Schlueter, Robert Geffers, Heike Baehre, Marius Vital
Summary: This study investigates the production of short-chain fatty acids (SCFAs) by different bacteria and their correlation with bacterial abundances. The results show a clear separation between butyrate- and propionate-forming bacteria, with only a few taxa having pathways for the production of both SCFAs. The abundances of pathway-carrying bacteria are positively correlated with the concentrations of respective SCFAs, particularly butyrate. The production of propionate is less imprinted into the core metabolism compared to butyrate. Additionally, stimulating the growth of butyrate- and propionate-producing bacteria leads to more production of these compounds, facilitated by two distinct bacterial groups.
Article
Immunology
Yajuan Fan, Yuan Gao, Qingyan Ma, Zai Yang, Binbin Zhao, Xiaoyan He, Jian Yang, Bin Yan, Fengjie Gao, Li Qian, Wei Wang, Feng Zhu, Xiancang Ma
Summary: Schizophrenia is associated with immune dysfunctions and disturbed intestinal microbiota. This study found that abnormal gut metabolism-immune network exists in schizophrenia, and gut microbiota may influence immune responses by regulating host metabolic processes.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Microbiology
Shan Sun, Huijun Wang, Annie Green Howard, Jiguo Zhang, Chang Su, Zhihong Wang, Shufa Du, Anthony A. Fodor, Penny Gordon-Larsen, Bing Zhang
Summary: Recent rapid urbanization has had a profound impact on human lifestyles and is associated with increased disease risks. This study discovered significant changes in the community structure and functional capacity of the human gut microbiota with urbanization, indicating potential loss and suppression of novel symbionts. The findings highlight the importance of studying microbial diversity in rural populations.
Article
Agricultural Engineering
Weizhong Huo, Rong Ye, Yuchao Shao, Menggang Bao, Rainer Stegmann, Wenjing Lu
Summary: This study investigates the effects of Pt@C on chain elongation and its associated mechanisms in simulated sequencing batch reactors. The addition of 5.0 g/L of Pt@C greatly enhances the synthesis of caproate, with an average yield of 21.5 g COD/L, which is 207.4% higher than the trial without Pt@C. Integrated metagenomic and metaproteomic analyses reveal that Pt@C enhances chain elongation by increasing the relative abundance of dominant species and promoting the expression of functional genes related to chain elongation. Furthermore, Pt@C may enhance CO2 uptake of Clostridium kluyveri to promote overall chain elongation metabolism. This study provides insights into the fundamental mechanisms of chain elongation and its enhancement by Pt@C in upgrading bioproducts from organic waste streams.
BIORESOURCE TECHNOLOGY
(2023)
Article
Biochemical Research Methods
Qingfeng Zhang, Kai Yu, Shihua Li, Xiaolong Zhang, Qi Zhao, Xia Zhao, Zekun Liu, Han Cheng, Ze-Xian Liu, Xiaoxing Li
Summary: The study introduced gutMEGA, a comprehensive database curating and hosting quantitative gut microbiota datasets from Homo sapiens. It integrated 59,132 quantification events for 6457 taxa under 776 conditions, providing users with a fast and simple way to access relative abundances of intestinal microbes through various browsing and search functions. GutMEGA is a convenient and comprehensive resource for gut metagenome research, available for free access at http://gutmega.omicsbio.info.
BRIEFINGS IN BIOINFORMATICS
(2021)
Article
Microbiology
Federico Fontana, Giulia Longhi, Chiara Tarracchini, Leonardo Mancabelli, Gabriele Andrea Lugli, Giulia Alessandri, Francesca Turroni, Christian Milani, Marco Ventura
Summary: The correlation between the physical performance of athletes and their gut microbiota has been studied, and it has been found that the gut microbiota plays a crucial role in the health status of athletes. The metabolic activity of the microbial population in the large intestine of athletes may influence their physical performance.
Article
Biochemistry & Molecular Biology
Yueren Xu, Bingbing Lei, Qingfeng Zhang, Yunjiao Lei, Cunyuan Li, Xiaoyue Li, Rui Yao, Ruirui Hu, Kaiping Liu, Yue Wang, Yuying Cui, Limin Wang, Jihong Dai, Lei Li, Wei Ni, Ping Zhou, Ze-Xian Liu, Shengwei Hu
Summary: This article introduces a database called ADDAGMA, which is designed to store high-throughput sequencing data of the gut microbiome in domestic animals. ADDAGMA provides browse and search functions, allowing users to make customized, complex, and biologically relevant queries, and quickly obtain experimental information and results. The current version of ADDAGMA includes gut microbiota sequencing data from pig, cattle, horse, and chicken, and will be expanded to include other domestic animals.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)