Article
Microbiology
Paul D. Veith, Nichollas E. Scott, Eric C. Reynolds
Summary: In this study, novel techniques coupled with mass spectrometry were used to identify over 13 glycans and 312 putative glycosylation sites in 145 glycoproteins within Tannerella forsythia. Glycosylation site analysis revealed a broader motif than initially reported, suggesting a high prevalence of potential glycoproteins in this organism.
Article
Multidisciplinary Sciences
Peter Nguyen, Rony Eshaque, Barbara Anne Garland, Anthony Dang, Michael D. L. Suits
Summary: Advanced periodontitis is strongly associated with the presence of the bacterial consortia known as the red complex, which includes Porphyromonas gingivalis, Tannerella forsythia, and Treponema denticola. In this study, the researchers investigated the genetic linkage and carbohydrate degradation capacity of T. forsythia, and identified a new polysaccharide utilization loci (PUL)-like operon. They also reported the crystal structures of two proteins encoded in this operon and demonstrated the enzymatic kinetics and degradation process of chondroitin sulfate A by these proteins.
Article
Chemistry, Physical
David Teze, Joan Coines, Folmer Fredslund, Kshatresh D. Dubey, Gonzalo N. Bidart, Paul D. Adams, John E. Dueber, Birte Svensson, Carme Rovira, Ditte H. Welner
Summary: The study found that UGT1 from Polygonum tinctorium can catalyze N-, O-, or S-glycosylation with similar rates, and elucidated the molecular basis of N-, O-, and S-specificities using experimental mutagenesis and simulations. It also showed that the active site can be engineered to increase or favor one of the three glycosylation activities over another, leading to the design of more active and specific enzyme variants for glycoside production.
Article
Immunology
Matthias L. Braun, Markus B. Tomek, Clemens Gruenwald-Gruber, Phuong Q. Nguyen, Susanne Bloch, Jan S. Potempa, Oleh Andrukhov, Christina Schaeffer
Summary: This study confirms that Tannerella forsythia and Porphyromonas gingivalis affect the inflammatory response of the host immune system through different targets in the T9SS. The T9SS mutant of T. forsythia significantly reduces the production of cytokines and chemokines in human cells, while the opposite is observed for the T9SS mutant of P. gingivalis.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Chemistry, Analytical
Luyao Liu, He Zhu, Lei Liu, Xin You, Jiawei Mao, Yan Wang, Xiaoyan Liu, Hongqiang Qin, Mingming Dong, Mingliang Ye
Summary: Mucin-type O-glycosylation plays a vital role in regulating protein functions and biological processes, but its analysis is challenging due to the diverse and dense O-glycans. In this study, an O-glycopeptide truncation strategy using proteases or O-glycopeptidases was developed to simplify and enhance the analysis of O-GalNAc glycoproteomics.
ANALYTICAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
John Kelly, Evgeny Vinogradov, Anna Robotham, Luc Tessier, Susan M. Logan, Ken F. Jarrell
Summary: This study reports the N- and O-glycosylation modifications in Methanoculleus marisnigri, a methanogen from the Order Methanomicrobiales. Mass spectrometry and NMR analysis revealed the presence of N- and O-glycans in the S-layer protein, but not in the archaellins. The findings provide insights into the glycosylation diversity in archaea.
Article
Chemistry, Analytical
Amanda Helms, Edwin E. E. Escobar, Saulius Vainauskas, Christopher H. H. Taron, Jennifer S. S. Brodbelt
Summary: The complete characterization of O-glycopeptides, including identification of peptides, localization of glycosites, and mapping of glycans, has been a challenging task in O-glycoproteomics. This study successfully applied a strategy combining the use of O-glycoprotease IMPa and HCD-triggered UVPD to achieve the complete characterization of O-glycopeptides. This approach allowed the localization of multiple adjacent or proximal O-glycosites and the identification of a previously unknown glycosite on etanercept.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Medicinal
Kimberly A. Wodzanowski, Stephen N. Hyland, Sreedevi Chinthamani, Liam-Michael D. Sandles, Kiyonobu Honma, Ashu Sharma, Catherine L. Grimes
Summary: In this study, the recycling potential of Tannerella forsythia for NAM uptake was explored. By modifying the cell wall structure and incorporating NAM analogues, the visualization of peptidoglycan was achieved. Furthermore, homologues of NAM recycling enzymes were identified in T. forsythia and successfully transformed into Escherichia coli, providing a useful tool for studying NAM recycling and peptidoglycan scavenging pathways.
ACS INFECTIOUS DISEASES
(2022)
Article
Biochemistry & Molecular Biology
Yogita Sharma, Shimona Ahlawat, Alka Rao
Summary: This study provides experimental evidence for S-glycosylation in Actinobacteria and demonstrates the application of its S/O-HexNAc-transferase in glycocin engineering, generating new neoglycocins against Listeria monocytogenes.
Article
Chemistry, Medicinal
Kimberly A. Wodzanowski, Stephen N. Hyland, Sreedevi Chinthamani, Liam-Michael D. Sandles, Kiyonobu Honma, Ashu Sharma, Catherine L. Grimes
Summary: This article explores the potential recycling of NAM by T. forsythia and identifies enzyme homologues that are involved in this process. By genetically transforming and modifying the bacteria, non-natural NAM analogues were efficiently incorporated into the peptidoglycan backbone and visualized. This strain will be beneficial for further studies on the pathways of NAM recycling and peptidoglycan scavenging in T. forsythia and other cohabiting bacteria.
ACS INFECTIOUS DISEASES
(2022)
Article
Multidisciplinary Sciences
Eugenia Wulff-Fuentes, Jeffrey Boakye, Kaeley Kroenke, Rex R. Berendt, Carla Martinez-Morant, Michaela Pereckas, John A. Hanover, Stephanie Olivier-Van Stichelen
Summary: The study investigates the role of O-GlcNAcylation in regulating the solubility and aggregation of OTX2 protein, potentially preventing OTX2 aggregation through its interaction with CCT5 protein. Additionally, O-GlcNAc-depleted OTX2 is detrimental to cancer cells.
Article
Chemistry, Analytical
Miloslav Sanda, Lindsay Morrison, Radoslav Goldman
Summary: The outbreak of the Covid-19 pandemic has caused the current global health crisis, prompting the need for detailed studies on SARS-CoV-2 proteins to develop effective antiviral compounds and vaccines. The glycosylation of the spike (S) protein plays a significant role in its proteolytic activation, expanding the current knowledge in this area.
ANALYTICAL CHEMISTRY
(2021)
Review
Plant Sciences
Richard Strasser, Georg Seifert, Monika S. Doblin, Kim L. Johnson, Colin Ruprecht, Fabian Pfrengle, Antony Bacic, Jose M. Estevez
Summary: Glycosylation is a crucial modification process that can alter the biological function of proteins and lipids, affecting the development and physiology of an organism. While challenges remain in understanding plant glycosylation, high throughput approaches may help to address these gaps, revolutionizing the identification and characterization of unknown plant glycosyltransferases and hydrolases.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Chemistry, Multidisciplinary
Ignacio Sanz-Martinez, Ana Garcia-Garcia, Tomas Tejero, Ramon Hurtado-Guerrero, Pedro Merino
Summary: Protein O-fucosyltransferase 2 (PoFUT2) is an important glycosyltransferase that recognizes a diverse range of TSRs through water-mediated interactions. Water molecules not only play a role in ligand recognition but also in the catalytic mechanism of PoFUT2.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2022)
Article
Chemistry, Multidisciplinary
Kevin Pfeifer, Eva-Kathrin Ehmoser, Simon K-M R. Rittmann, Christa Schleper, Dietmar Pum, Uwe B. Sleytr, Bernhard Schuster
Summary: The outermost component of cell envelopes in most bacteria and almost all archaea is a protein lattice called Surface (S-) layer, which has a highly porous structure with regularly arranged pores in the nm-range. The S-layer fragments of a hyperthermophilic acidophilic archaeon SSO show high retention efficiency and reduced extraction costs, making them economically attractive.
Article
Biochemistry & Molecular Biology
David Stenitzer, Reka Mocsai, Harald Zechmeister, Ralf Reski, Eva L. Decker, Friedrich Altmann
Summary: A diverse range of N-glycan structures with phylogenetic specificities have emerged in the animal kingdom, while N-glycosylation in the plant kingdom appears to be more conservative and uniform. However, the analysis of several moss species revealed variations in N-glycan structures and levels of O-methylation, which suggests a possible evolutionary relation to green algae.
Article
Engineering, Environmental
Reihaneh Bashiri, Ben Allen, Burhan Shamurad, Martin Pabst, Thomas P. Curtis, Irina D. Ofiteru
Summary: Poor lipid degradation limits low-temperature anaerobic treatment of domestic wastewater. Metagenomics and metaproteomics were used to identify lipolytic bacteria and their extracellular lipases in anaerobic membrane bioreactors. The results did not confirm each other and further work is needed to identify the true lipid degraders in these systems.
Article
Biology
Francesca D'Angelo, Elena Fernandez-Fueyo, Pierre Simon Garcia, Helena Shomar, Martin Pelosse, Rita Rebelo Manuel, Ferhat Buke, Siyi Liu, Niels van den Broek, Nicolas Duraffourg, Carol de Ram, Martin Pabst, Emmanuelle Bouveret, Simonetta Gribaldo, Beatrice Py, Sandrine Ollagnier de Choudens, Frederic Barras, Gregory Bokinsky
Summary: Iron-sulfur (Fe-S) clusters play crucial roles in various metabolic and regulatory processes, but Fe-S enzymes often fail to function in non-native host species. By studying the compatibility of non-native Fe-S enzymes, we found a significant correlation between phylogenetic distance and probability of functional expression. Coexpression of heterologous Fe-S biogenesis pathways can expand the range of compatible orthologs. Moreover, Fe-S enzymes requiring specific electron carrier proteins usually require their taxon-specific reducing partners for successful expression.
Article
Biotechnology & Applied Microbiology
Eline D. Postma, Else-Jasmijn Hassing, Venda Mangkusaputra, Jordi Geelhoed, Pilar de la Torre, Marcel van den Broek, Christiaan Mooiman, Martin Pabst, Jean-Marc Daran, Pascale Daran-Lapujade
Summary: This study demonstrates the feasibility of extensive genome reprogramming using modular, specialized de novo-assembled neochromosomes in yeast, leading to the first de novo production of anthocyanins in a microbial cell factory. The neochromosomes mimic native chromosomes in terms of mitotic and genetic stability, serving as exclusive expression platforms for heterologous and essential metabolic routes.
METABOLIC ENGINEERING
(2022)
Article
Dentistry, Oral Surgery & Medicine
Fabian L. Kendlbacher, Susanne Bloch, Fiona F. Hager-Mair, Johanna Bacher, Bettina Janesch, Thomas Thurnheer, Oleh Andrukhov, Christina Schaeffer
Summary: This study compared the periodontitis-associated bacterium Tannerella forsythia with its closest phylogenetic relative Tannerella serpentiformis, which is considered health-associated. The results showed that the presence of T. serpentiformis in oral biofilms led to a decrease in total bacteria count, while T. forsythia promoted biofilm growth. However, when added together, T. serpentiformis mitigated the growth-promoting effect of T. forsythia. T. serpentiformis outcompeted T. forsythia in the biofilm and had a more even distribution throughout the biofilm. In invasion assays, T. serpentiformis was less effective in invading human gingival epithelial cells compared to T. forsythia. In addition, T. serpentiformis had a higher immunostimulatory potential in human gingival fibroblasts and macrophages. These findings suggest that T. serpentiformis has the potential to interfere with processes relevant to the development of periodontitis.
MOLECULAR ORAL MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Sergio Tomas-Martinez, Le Min Chen, Martin Pabst, David G. Weissbrodt, Mark C. M. van Loosdrecht, Yuemei Lin
Summary: Pseudaminic and legionaminic acid are types of nonulosonic acids (NulOs) found only in bacterial species. Limited progress has been made in studying these NulOs due to their complex synthesis and production. Recent research has discovered that Candidatus Accumulibacter produces analogues of Pse and Leg as part of its extracellular polymeric substances (EPS). By extracting EPS from Ca. Accumulibacter and using size-exclusion chromatography (SEC), it was found that high molecular weight polysaccharides contained NulOs at levels up to four times higher than the extracted EPS. Additionally, the extracted EPS and NulO-rich fractions were found to bind and neutralize histones, indicating their potential as a source for sepsis treatment drugs.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Sergio Tomas-Martinez, Erwin J. Zwolsman, Franck Merlier, Martin Pabst, Yuemei Lin, Mark C. M. van Loosdrecht, David G. Weissbrodt
Summary: Polyphosphate accumulating organisms (PAOs) play a crucial role in the removal of phosphate from wastewater. However, little is known about the dynamics of extracellular polymeric substances (EPS) in mixed cultures and their interaction with flanking microbes. Understanding EPS turnover can provide insights into their biosynthesis and degradation cycles.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Daphne Keulen, Erik van der Hagen, Geoffroy Geldhof, Olivier Le Bussy, Martin Pabst, Marcel Ottens
Summary: An optimal purification process for biopharmaceutical products is crucial for meeting safety regulations and obtaining economic benefits. By employing artificial neural networks (ANNs) during global optimization, the number of flowsheets for final local optimization can be reduced, leading to a shorter overall optimization time.
BIOTECHNOLOGY AND BIOENGINEERING
(2023)
Article
Biochemical Research Methods
Roxana Disela, Olivier Le Bussy, Geoffroy Geldhof, Martin Pabst, Marcel Ottens
Summary: Mass-spectrometry-based proteomics is used to monitor purification processes and detect host cell proteins in the final drug substance. It provides unbiased identification of individual host cell proteins. Proteomics can provide qualitative and quantitative information on the host cell proteome before purification, enabling a more rational design of purification strategies. This study presents an extensive proteomic characterization of two commonly used E. coli host cell strains and integrates subunit information and post-translational modifications.
BIOTECHNOLOGY JOURNAL
(2023)
Article
Allergy
Stephanie Dramburg, Christiane Hilger, Alexandra F. Santos, Leticia de las Vecillas, Rob C. Aalberse, Nathalie Acevedo, Lorenz Aglas, Friedrich Altmann, Karla L. Arruda, Riccardo Asero, Barbara Ballmer-Weber, Domingo Barber, Kirsten Beyer, Tilo Biedermann, Maria Beatrice Bilo, Simon Blank, Philipp P. Bosshard, Heimo Breiteneder, Helen A. Brough, Merima Bublin, Dianne Campbell, Luis Caraballo, Jean Christoph Caubet, Giorgio Celi, Martin D. Chapman, Maksymilian Chruszcz, Adnan Custovic, Rebecca Czolk, Janet Davies, Nikolaos Douladiris, Bernadette Eberlein, Motohiro Ebisawa, Anna Ehlers, Philippe Eigenmann, Gabriele Gadermaier, Mattia Giovannini, Francisca Gomez, Rebecca Grohman, Carole Guillet, Christine Hafner, Robert G. Hamilton, Michael Hauser, Thomas Hawranek, Hans Juergen Hoffmann, Thomas Holzhauser, Tomona Iizuka, Alain Jacquet, Thilo Jakob, Bente Janssen-Weets, Uta Jappe, Marek Jutel, Tanja Kalic, Sandip Kamath, Sabine Kespohl, Joerg Kleine-Tebbe, Edward Knol, Andre Knulst, Jon R. Konradsen, Peter Korosec, Annette Kuehn, Gideon Lack, Thuy-My Le, Andreas Lopata, Olga Luengo, Mika Maekelae, Alessandro Maria Marra, Clare Mills, Martine Morisset, Antonella Muraro, Anna Nowak-Wegrzyn, Roni Nugraha, Markus Ollert, Kati Palosuo, Elide Anna Pastorello, Sarita Ulhas Patil, Thomas Platts-Mills, Anna Pomes, Pascal Poncet, Ekaterina Potapova, Lars K. Poulsen, Christian Radauer, Suzana Radulovic, Monika Raulf, Pierre Rouge, Joaquin Sastre, Sakura Sato, Enrico Scala, Johannes M. Schmid, Peter Schmid-Grendelmeier, Denise Schrama, Helene Senechal, Claudia Traidl-Hoffmann, Marcela Valverde-Monge, Marianne van Hage, Ronald van Ree, Kitty Verhoeckx, Stefan Vieths, Magnus Wickman, Josefina Zakzuk, Paolo M. Matricardi, Karin Hoffmann-Sommergruber
Summary: Since the discovery of IgE as a mediator of allergic diseases, our knowledge about its immunological mechanisms has greatly increased. Innovations in bioscience and technology have facilitated the production of well-defined molecules for component-resolved diagnosis, allowing personalized management of allergic diseases. The Molecular Allergology User's Guide 2.0 provides updated information on allergen molecules, their clinical relevance, and diagnostic algorithms, serving as a valuable resource for clinicians and scientists.
PEDIATRIC ALLERGY AND IMMUNOLOGY
(2023)
Article
Engineering, Environmental
Francesc Corbera-Rubio, Michele Laureni, Nienke Koudijs, Simon Mueller, Theo van Alen, Frank Schoonenberg, Sebastian Luecker, Martin Pabst, Mark C. M. van Loosdrecht, Doris van Halem
Summary: Rapid sand filters (RSF) are commonly used for groundwater treatment, however, the processes controlling the removal of iron, ammonia, and manganese are not well understood. This study investigated two drinking water treatment plant configurations and found that the removal of ammonium and manganese only occurred after iron depletion. The microbial composition and media coating within each compartment were found to be homogeneous, indicating the effect of backwashing. However, the removal of contaminants was stratified within each compartment, with proteins catalyzing ammonia oxidation and nitrifying genera showing significant differences in abundances between top and bottom samples. These findings highlight the potential of metaproteomics in understanding metabolic adaptations and interactions in dynamic ecosystems.
Article
Chemistry, Multidisciplinary
Albert Godoy-Hernandez, Amer H. Asseri, Aiden J. Purugganan, Chimari Jiko, Carol de Ram, Holger Lill, Martin Pabst, Kaoru Mitsuoka, Christoph Gerle, Dirk Bald, Duncan G. G. McMillan
Summary: LMNG Auto-insertion Reintegration (LAiR) is a new method that allows for rapid reintegration of integral membrane proteins, displaying excellent functional recovery capabilities, and playing a significant role in the study of membrane proteins.
ACS CENTRAL SCIENCE
(2023)
Article
Ecology
Dimitry Y. Y. Sorokin, Tamara V. V. Tikhonova, Hanna Koch, Eveline M. M. van den Berg, Renske S. S. Hinderks, Martin Pabst, Natalia I. I. Dergousova, Anastasia Y. Y. Soloveva, Gijs J. J. Kuenen, Vladimir O. O. Popov, Mark C. M. van Loosdrecht, Sebastian Lucker
Summary: This study discovered a new copper-depleted dissimilatory nitrate-reducing organism called Trichlorobacter ammonificans. It can actively grow using acetate as the electron donor and carbon source, and nitrate as the electron acceptor, with hydrogen as an additional electron donor. The organism uses an octaheme cytochrome c protein called TaNiR to carry out the dissimilatory nitrate reduction. These findings highlight the importance of this organism in various anaerobic systems such as rice paddy soil and wastewater treatment facilities.
Article
Biotechnology & Applied Microbiology
Benjamin Kogelmann, Roman Palt, Daniel Maresch, Richard Strasser, Friedrich Altmann, Somanath Kallolimath, Lin Sun, Marc-Andre DAoust, Pierre-Olivier Lavoie, Pooja Saxena, Johannes S. S. Gach, Herta Steinkellner
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Engineering, Environmental
Ali Elahinik, Linghang Li, Martin Pabst, Ben Abbas, Dimitrios Xevgenos, Mark C. M. van Loosdrecht, Mario Pronk
Summary: This study investigated the conversion of glucose and its impact on phosphate removal by aerobic granular sludge. The results demonstrated that glucose could be used as a suitable substrate for achieving phosphate removal and that a microbial community consisting of fermentative organisms and polyphosphate accumulating organisms (PAO) developed.
