Article
Microbiology
Ruochun Guo, Shenghui Li, Yu Zhang, Yue Zhang, Guangyang Wang, Hayan Ullah, Yufang Ma, Qiulong Yan
Summary: Our study demonstrates community variation in dental plaque, saliva, and fecal viromes. The perturbation of viral composition and the correlation network of microbes and RA-associated clinical indices might play a role in the pathogenicity of rheumatoid arthritis (RA). This expands our knowledge of the potential role of oral and gut viral communities in RA development and could contribute to research on correlations between viruses and other diseases.
MICROBIOLOGY SPECTRUM
(2022)
Review
Medicine, General & Internal
Sylvie Le, Chiara Cecchin-Albertoni, Charlotte Thomas, Philippe Kemoun, Matthieu Minty, Vincent Blasco-Baque
Summary: The dysbiosis of the oral microbiota, particularly in periodontal disease, and its association with cardiometabolic diseases is still not fully understood. This review explores the link between the oral microbiota and cardiometabolic diseases, focusing on the importance of periodontal disease, and discusses potential prevention and treatment strategies.
Article
Biotechnology & Applied Microbiology
Yaling Jiang, Bernd W. Brandt, Mark J. Buijs, Lei Cheng, Rob A. M. Exterkate, Wim Crielaard, Dong Mei Deng
Summary: By incorporating the periodontal pathogen Porphyromonas gingivalis into saliva-derived microcosm biofilms, we established an in vitro pathogen-enriched dysbiotic microbiota that resembles the periodontitis-associated subgingival microbiota. This model may facilitate the investigation of factors influencing microbial shift and the development of microbiome modulation strategies.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Microbiology
Divya Gopinath, Rohit Kunnath Menon, Chong Chun Wie, Moinak Banerjee, Swagatika Panda, Deviprasad Mandal, Paresh Kumar Behera, Susanta Roychoudhury, Supriya Kheur, Michael George Botelho, Newell W. Johnson
Summary: Oral leukoplakia and oral cancer patients have considerable overlap in the bacteriome of whole mouth fluid, while a clearer separation exists with healthy controls. This suggests a potential role of oral bacteria in early stages of oral carcinogenesis.
JOURNAL OF ORAL MICROBIOLOGY
(2021)
Article
Oncology
Hiroki Matsukawa, Noriho Iida, Kazuya Kitamura, Takeshi Terashima, Jun Seishima, Isamu Makino, Takayuki Kannon, Kazuyoshi Hosomichi, Taro Yamashita, Yoshio Sakai, Masao Honda, Tatsuya Yamashita, Eishiro Mizukoshi, Shuichi Kaneko
Summary: The study revealed differences in gut and oral microbiota between pancreatic cancer patients and healthy individuals, with certain microbes being associated with patient prognoses. A complex network of microbiota was found in PC patients, where specific microbes were closely linked with poor prognostic factors.
AMERICAN JOURNAL OF CANCER RESEARCH
(2021)
Article
Biotechnology & Applied Microbiology
Xiaolan Li, Lin Shang, Bernd W. Brandt, Mark J. Buijs, Sanne Roffel, Cor van Loveren, Wim Crielaard, Susan Gibbs, Dong Mei Deng
Summary: The microbial composition of a specific oral niche is influenced by initial bacterial adherence, nutrient, and physiological properties of the local surface. The viability and diversity of biofilms on abiotic substrata are affected by substrata type, pH of the environment, and the richness of the growth media, whereas biotic substratum shows high viability and diversity in supporting a microbiome. These findings highlight the crucial role of the host (oral mucosa) in oral ecology.
NPJ BIOFILMS AND MICROBIOMES
(2021)
Article
Microbiology
Kyoko Yamazaki, Eiji Miyauchi, Tamotsu Kato, Keisuke Sato, Wataru Suda, Takahiro Tsuzuno, Miki Yamada-Hara, Nobuo Sasaki, Hiroshi Ohno, Kazuhisa Yamazaki
Summary: This study demonstrates that periodontitis-associated oral microbiota can induce disease phenotype when colonizing the gut of germ-free mice, affecting gut microbial composition, hepatic gene expression profiles, and serum metabolites.
JOURNAL OF ORAL MICROBIOLOGY
(2022)
Article
Microbiology
Baoqing Zhou, Jen Mobberley, Kelly Shi, Irene A. Chen
Summary: This study successfully created reproducible oral microcosms by utilizing selective conditions of cold storage and culturing in defined media, despite variations in the oral microbiomes across different individuals.
Article
Microbiology
Aurea Simon-Soro, Zhi Ren, Bastiaan P. Krom, Michel A. Hoogenkamp, Pedro J. Cabello-Yeves, Scott G. Daniel, Kyle Bittinger, Inmaculada Tomas, Hyun Koo, Alex Mira
Summary: Microbial aggregates with diverse structures and compositions, including bacteria associated with host cells, are found in human saliva. These aggregates rapidly proliferate and expand during colonization and biofilm initiation, while most single cells remain static or are incorporated by growing aggregates. This alternative biofilm development process involves aggregates adhering to surfaces as growth nuclei and shaping polymicrobial communities at different scales.
Article
Microbiology
Aurea Simon-Soro, Zhi Ren, Bastiaan P. Krom, Michel A. Hoogenkamp, Pedro J. Cabello-Yeves, Scott G. Daniel, Kyle Bittinger, Inmaculada Tomas, Hyun Koo, Alex Mira
Summary: This study investigates the structural organization of microbial aggregates in human saliva and their role in biofilm formation. It reveals that preformed microbial consortia adhere as buds of growth, governing biofilm initiation. These findings provide new insights into spatial and population heterogeneity development in complex ecosystems.
Review
Immunology
Pachiappan Arjunan
Summary: The paradigm shift has led to the consideration of oral health as a fundamental part of overall well-being, with implications of chronic oral inflammation on eye diseases. Mechanisms by which periodontal microbiota may trigger immune dysfunction and promote the development of periodontal disease-associated AMD have been discussed.
INTERNATIONAL REVIEWS OF IMMUNOLOGY
(2021)
Article
Microbiology
Dae Wui Yoon, Inkyung Baik
Summary: The human gut microbiome may influence sleep through the gut-brain axis, but the sleep-promoting effects of gut microbiota are still unclear. In this study, oral administration of probiotic P. histicola in rats increased total sleep, REM sleep, and NREM sleep time. This suggests that P. histicola could be a potential sleep aid.
Review
Agriculture, Multidisciplinary
Jing Chang, Yang Liu, Tiancheng Zhang, Zhanfang Chen, Hongbin Fang, Xuewen Hua
Summary: In this Review, the application of hydrazide and its derived structures in the agricultural fungicidal field was discussed. The antifungal mechanism of action of the hydrazide derivatives was analyzed and summarized. Furthermore, the structure-activity relationship of the hydrazide derivatives and the development trend of hydrazide structures in fungicidal applications were explored.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Aleksandra Tomskaya, Igor P. Asanov, Irina Yushina, Mariana I. Rakhmanova, Svetlana Smagulova
Summary: In this study, two types of luminescent carbon dots were synthesized by hydrothermal treatment of citric acid and trans-aconitic acid, using ammonia solution as a nitrogen dopant. The synthesized carbon dots had a lateral size range of 3-15 nm and emitted intense blue photoluminescence at around 409-435 nm under 320 nm excitation. The photoluminescence quantum yield of the carbon dots ranged from 26.4% to 51%. Molecular fluorophores, particularly citrazinic acid derivatives, were found to play an important role in the structure and optical properties of the carbon dots.
Article
Biochemistry & Molecular Biology
Meng Yang, Jingbo Liu, Yajuan Li, Qi Yang, Xuanting Liu, Chunmei Liu, Sitong Ma, Boqun Liu, Ting Zhang, Hang Xiao, Zhiyang Du
Summary: This study successfully developed an oral co-delivery system for egg white derived peptides (EWDP) and curcumin using a self-assembled amphiphilic system, showing ideal colloidal properties and encapsulation capacity at pH 2.0-7.0. Results indicated that hydrogen bonding and hydrophobic interaction were the main driving force for the formation of amphiphilic nanoparticles, which exhibited superior bioavailability compared to simple mixtures and conventional curcumin inclusion complexes.
Article
Cell Biology
Ewelina Dobosz, Georg Lorenz, Andrea Ribeiro, Vivian Wuerf, Marta Wadowska, Jerzy Kotlinowski, Christoph Schmaderer, Jan Potempa, Mingui Fu, Joanna Koziel, Maciej Lech
Summary: Research has shown that depletion of MCPIP1 in macrophages and granulocytes can trigger severe autoimmune diseases like systemic lupus, affecting adaptive immune responses. This phenomenon is related to systemic autoinflammation and suggests that abnormal macrophage activation plays a significant role in the loss of immune tolerance.
DISEASE MODELS & MECHANISMS
(2021)
Article
Biochemistry & Molecular Biology
Laura Del Amo-Maestro, Amin Sagar, Petr Pompach, Theodoros Goulas, Carsten Scavenius, Diego S. Ferrero, Mariana Castrillo-Briceno, Marta Taules, Jan J. Enghild, Pau Bernado, F. Xavier Gomis-Ruth
Summary: This study characterized the complex formed by AD13-MDTCS with a vWF peptide, revealing tight binding and conformational changes. By integrating experimental and computational methods, insights into the interaction mechanism and structural patterns were provided.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Microbiology
Kathrin Stelzner, Aziza Boyny, Tobias Hertlein, Aneta Sroka, Adriana Moldovan, Kerstin Paprotka, David Kessie, Helene Mehling, Jan Potempa, Knut Ohlsen, Martin J. Fraunholz, Thomas Rudel
Summary: The bacterial cysteine protease staphopain A contributes to host cell death mediated by intracellular S. aureus, enhancing both bacterial survival in lung infection and tissue destruction. In epithelial cells, staphopain A induces cell death and intracellular replication without requiring bacterial proliferation. The role of staphopain A in facilitating colonization and dissemination of infection is highlighted in this study.
Article
Multidisciplinary Sciences
Danuta Mizgalska, Theodoros Goulas, Arturo Rodriguez-Banqueri, Florian Veillard, Mariusz Madej, Ewelina Malecka, Katarzyna Szczesniak, Miroslaw Ksiazek, Magda Widziolek, Tibisay Guevara, Ulrich Eckhard, Maria Sola, Jan Potempa, F. Xavier Gomis-Ruth
Summary: Porphyromonas gingivalis employs the T9SS system to transport proteins to the outer membrane, where PorU plays a key role in forming an attachment complex. PorU functions as both an active monomer and a latent dimer, with an elongated shape consisting of seven domains including a crucial C-terminal domain.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biochemistry & Molecular Biology
Soraia R. Mendes, Ulrich Eckhard, Arturo Rodriguez-Banqueri, Tibisay Guevara, Peter Czermak, Enrique Marcos, Andreas Vilcinskas, F. Xavier Gomis-Ruth
Summary: The insect metallopeptidase inhibitor (IMPI) produced by Galleria mellonella has been found to inhibit the pathogenic bacterium Staphylococcus aureus, which may contribute to the development of novel protein drugs for treating Staphylococcus aureus infections.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Multidisciplinary Sciences
Daniel Luque, Theodoros Goulas, Carlos P. Mata, Soraia R. Mendes, F. Xavier Gomis-Ruth, Jose R. Caston
Summary: In this study, the molecular mechanism of the inhibitory function of human alpha(2)-macroglobulin was dissected using cryo-EM structures. The results demonstrate that h alpha M-2 forms an inhibitory trap through conformational transitions, allowing it to regulate circulating proteases.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Liqiang Song, John D. Perpich, Chenggang Wu, Thierry Doan, Zuzanna Nowakowska, Jan Potempa, Peter J. Christie, Eric Cascales, Richard J. Lamont, Bo Hu
Summary: This study reveals the structure and assembly of P. gingivalis T9SS and its correlation with the development of periodontal disease. The T9SS shows unique structure and mechanisms.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Rosanna Caliandro, Inaki de Diego, F. Xavier Gomis-Rueth
Summary: Bacillus subtilis is a bacterium found in the human microbiome that can infect immunocompromised patients. It has a transposon called ICEBs1, which can be transferred to other bacteria, including pathogenic Bacillus anthracis and Listeria monocytogenes. This study focuses on the regulation of ICEBs1 by ImmR/ImmA and the crystal structure of ImmR's DNA-binding domain, revealing its potential role in binding to target DNA.
SCIENTIFIC REPORTS
(2022)
Letter
Multidisciplinary Sciences
Daniel Luque, Theodoros Goulas, Carlos P. Mata, Soraia R. Mendes, F. Xavier Gomis-Ruth, Jose R. Caston
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Ana Jimenez-Alesanco, Ulrich Eckhard, Marta Asencio del Rio, Sonia Vega, Tibisay Guevara, Adrian Velazquez-Campoy, Francesc Xavier Gomis-Ruth, Olga Abian
Summary: Bacteroides fragilis is a commensal component of the human colon, but under dysbiotic conditions, enterotoxigenic B. fragilis (ETBF) can cause various diseases. ETBF is resistant to many antibiotics and its virulence is mainly related to a zinc-dependent metallopeptidase called B. fragilis toxin (BFT). Researchers have focused on a specific isoform of BFT, BFT-3, and found that certain approved drugs can be repurposed as BFT-3 inhibitors. These inhibitors bind to an allosteric site in the proBFT-3 zymogen structure, preventing the activation of the toxin and reducing its hydrolytic activity. This discovery provides a new approach for developing specific inhibitors for ETBF-mediated enteropathogenic conditions.
Article
Multidisciplinary Sciences
Tamuka M. Chidyausiku, Soraia R. Mendes, Jason C. Klima, Marta Nadal, Ulrich Eckhard, Jorge Roel-Touris, Scott Houliston, Tibisay Guevara, Hugh K. Haddox, Adam Moyer, Cheryl H. Arrowsmith, F. Xavier Gomis-Ruth, David Baker, Enrique Marcos
Summary: The researchers develop design rules for tailoring immunoglobulin domains and demonstrate their ability to accurately design these domains de novo with high stability and the ability to scaffold functional loops.
NATURE COMMUNICATIONS
(2022)
Article
Microbiology
Katarzyna Szczesniak, Florian Veillard, Carsten Scavenius, Kamila Chudzik, Kinga Ferenc, Matthias Bochtler, Jan Potempa, Danuta Mizgalska
Summary: In certain bacteria, the glutaminyl cyclase (QC) is crucial for protein stability and bacterial growth. QC converts glutamine residues to pyroglutamate, protecting proteins from degradation. However, the loss of QC results in the loss of Q-rule substrates, leading to the inability of bacteria to survive.
Article
Biochemistry & Molecular Biology
Zsombor Prucsi, Agnieszka Zimny, Alicja Plonczynska, Natalia Zubrzycka, Jan Potempa, Maja Sochalska
Summary: Periodontitis is a chronic inflammatory disease caused by dysbiotic oral microbiome, and Porphyromonas gingivalis is identified as a key pathogen. The mechanism by which P. gingivalis secretes the enzyme PPAD to contribute to the inflammation loop is not fully understood. This study reveals that PPAD promotes neutrophil survival and pro-inflammatory cytokine secretion, while enhancing the resilience of bacteria to phagocytosis, thus sustaining a chronic inflammatory state.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Krzysztof M. Zak, Mark J. Bostock, Irena Waligorska, Ida B. Thogersen, Jan J. Enghild, Grzegorz M. Popowicz, Przemyslaw Grudnik, Jan Potempa, Miroslaw Ksiazek
Summary: Mirolysin, a secretory protease of Tannerella forsythia, achieves latency through a cysteine-switch mechanism exerted by Cys23. Mutation of Cys23 shortens the activation time, and a small molecule compound (cpd 9) functions as a competitive inhibitor blocking promirolysin maturation.
JOURNAL OF ENZYME INHIBITION AND MEDICINAL CHEMISTRY
(2021)