thomatru

• Hatlem, Daniel; Trunk, Thomas; Linke, Dirk & Leo, Jack Christopher (2020). Catching a SPY: Using the SpyCatcher-SpyTag and Related Systems for Labeling and Localizing Bacterial Proteins. In Leitao, JH (Eds.), Microbial Virulence Factors. MDPI. ISSN 9783039369461. p. 371–400. doi: 10.3390/ijms20092129. Full text in Research Archive Show summary

  The SpyCatcher-SpyTag system was developed seven years ago as a method for protein ligation. It is based on a modified domain from a Streptococcus pyogenes surface protein (SpyCatcher), which recognizes a cognate 13-amino-acid peptide (SpyTag). Upon recognition, the two form a covalent isopeptide bond between the side chains of a lysine in SpyCatcher and an aspartate in SpyTag. This technology has been used, among other applications, to create covalently stabilized multi-protein complexes, for modular vaccine production, and to label proteins (e.g., for microscopy). The SpyTag system is versatile as the tag is a short, unfolded peptide that can be genetically fused to exposed positions in target proteins; similarly, SpyCatcher can be fused to reporter proteins such as GFP, and to epitope or purification tags. Additionally, an orthogonal system called SnoopTag-SnoopCatcher has been developed from an S. pneumoniae pilin that can be combined with SpyCatcher-SpyTag to produce protein fusions with multiple components. Furthermore, tripartite applications have been produced from both systems allowing the fusion of two peptides by a separate, catalytically active protein unit, SpyLigase or SnoopLigase. Here, we review the current state of the SpyCatcher-SpyTag and related technologies, with a particular emphasis on their use in vaccine development and in determining outer membrane protein localization and topology of surface proteins in bacteria.

• Klein, Kristina; Sonnabend, Michael; Frank, Lisa; Leibiger, Karolin; Franz-Wachtel, Mirita & Macek, Boris [Show all 11 contributors for this article] (2019). Deprivation of the Periplasmic Chaperone SurA Reduces Virulence and Restores Antibiotic Susceptibility of Multidrug-Resistant Pseudomonas aeruginosa. Frontiers in Microbiology. 10, p. 1–17. doi: 10.3389/fmicb.2019.00100. Full text in Research Archive Show summary

  Pseudomonas aeruginosa is one of the main causative agents of nosocomial infections and the spread of multidrug-resistant strains is rising. Therefore, novel strategies for therapy are urgently required. The outer membrane composition of Gram-negative pathogens and especially of Pa restricts the efficacy of antibiotic entry into the cell and determines virulence. For efficient outer membrane protein biogenesis, the β-barrel assembly machinery (BAM) complex in the outer membrane and periplasmic chaperones like Skp and SurA are crucial. Previous studies indicated that the importance of individual proteins involved in outer membrane protein biogenesis may vary between different Gram-negative species. In addition, since multidrug-resistant Pa strains pose a serious global threat, the interference with both virulence and antibiotic resistance by disturbing outer membrane protein biogenesis might be a new strategy to cope with this challenge. Therefore, deletion mutants of the non-essential BAM complex components bamB and bamC, of the skp homolog hlpA as well as a conditional mutant of surA were investigated. The most profound effects for both traits were associated with reduced levels of SurA, characterized by increased membrane permeability, enhanced sensitivity to antibiotic treatment and attenuation of virulence in a Galleria mellonella infection model. Strikingly, the depletion of SurA in a multidrug-resistant clinical bloodstream isolate re-sensitized the strain to antibiotic treatment. From our data we conclude that SurA of Pa serves as a promising target for developing a drug that shows antiinfective activity and re-sensitizes multidrug-resistant strains to antibiotics.

• Trunk, Thomas; Casasanta, Michael; Yoo, Christopher C.; Slade, Daniel J. & Leo, Jack Christopher (2019). Comparison of type 5d autotransporter phospholipases demonstrates a correlation between high activity and intracellular pathogenic lifestyle. Biochemical Journal. ISSN 0264-6021. 476(18), p. 2657–2676. doi: 10.1042/BCJ20190136. Full text in Research Archive Show summary

  Autotransporters, or type 5 secretion systems, are widespread surface proteins of Gram-negative bacteria often associated with virulence functions. Autotransporters consist of an outer membrane β-barrel domain and an exported passenger. In the poorly studied type 5d subclass, the passenger is a patatin-like lipase. The prototype of this secretion pathway is PlpD of Pseudomonas aeruginosa, an opportunistic human pathogen. The PlpD passenger is a homodimer with phospholipase A1 (PLA1) activity. Based on sequencing data, PlpD-like proteins are present in many bacterial species. We characterized the enzymatic activity, specific lipid binding and oligomeric status of PlpD homologs from Aeromonas hydrophila (a fish pathogen), Burkholderia pseudomallei (a human pathogen) and Ralstonia solanacearum (a plant pathogen) and compared these with PlpD. We demonstrate that recombinant type 5d-secreted patatin domains have lipase activity and form dimers or higher-order oligomers. However, dimerization is not necessary for lipase activity; in fact, by making monomeric variants of PlpD, we show that enzymatic activity slightly increases while protein stability decreases. The lipases from the intracellular pathogens A. hydrophila and B. pseudomallei display PLA2 activity in addition to PLA1 activity. Although the type 5d-secreted lipases from the animal pathogens bound to intracellular lipid targets, phosphatidylserine and phosphatidylinositol phosphates, hydrolysis of these lipids could only be observed for FplA of Fusobacterium nucleatum. Yet, we noted a correlation between high lipase activity in type 5d autotransporters and intracellular lifestyle. We hypothesize that type 5d phospholipases are intracellularly active and function in modulation of host cell signaling events.

• Hatlem, Daniel; Trunk, Thomas; Linke, Dirk & Leo, Jack Christopher (2019). Catching a SPY: Using the SpyCatcher-SpyTag and Related Systems for Labeling and Localizing Bacterial Proteins. International Journal of Molecular Sciences. ISSN 1661-6596. 20(9), p. 1–19. doi: 10.3390/ijms20092129. Full text in Research Archive Show summary

  The SpyCatcher-SpyTag system was developed seven years ago as a method for protein ligation. It is based on a modified domain from a Streptococcus pyogenes surface protein (SpyCatcher), which recognizes a cognate 13-amino-acid peptide (SpyTag). Upon recognition, the two form a covalent isopeptide bond between the side chains of a lysine in SpyCatcher and an aspartate in SpyTag. This technology has been used, among other applications, to create covalently stabilized multi-protein complexes, for modular vaccine production, and to label proteins (e.g., for microscopy). The SpyTag system is versatile as the tag is a short, unfolded peptide that can be genetically fused to exposed positions in target proteins; similarly, SpyCatcher can be fused to reporter proteins such as GFP, and to epitope or purification tags. Additionally, an orthogonal system called SnoopTag-SnoopCatcher has been developed from an S. pneumoniae pilin that can be combined with SpyCatcher-SpyTag to produce protein fusions with multiple components. Furthermore, tripartite applications have been produced from both systems allowing the fusion of two peptides by a separate, catalytically active protein unit, SpyLigase or SnoopLigase. Here, we review the current state of the SpyCatcher-SpyTag and related technologies, with a particular emphasis on their use in vaccine development and in determining outer membrane protein localization and topology of surface proteins in bacteria.

• Saragliadis, Athanasios; Trunk, Thomas & Leo, Jack Christopher (2018). Producing Gene Deletions in Escherichia coli by P1 Transduction with Excisable Antibiotic Resistance Cassettes. Journal of Visualized Experiments. 2018(139). doi: 10.3791/58267. Full text in Research Archive Show summary

  A first approach to study the function of an unknown gene in bacteria is to create a knock-out of this gene. Here, we describe a robust and fast protocol for transferring gene deletion mutations from one Escherichia coli strain to another by using generalized transduction with the bacteriophage P1. This method requires that the mutation be selectable (e.g., based on gene disruptions using antibiotic cassette insertions). Such antibiotic cassettes can be mobilized from a donor strain and introduced into a recipient strain of interest to quickly and easily generate a gene deletion mutant. The antibiotic cassette can be designed to include flippase recognition sites that allow the excision of the cassette by a site-specific recombinase to produce a clean knock-out with only a ~100-base-pair-long scar sequence in the genome. We demonstrate the protocol by knocking out the tamA gene encoding an assembly factor involved in autotransporter biogenesis and test the effect of this knock-out on the biogenesis and function of two trimeric autotransporter adhesins. Though gene deletion by P1 transduction has its limitations, the ease and speed of its implementation make it an attractive alternative to other methods of gene deletion.

• Krampen, Lea; Malmsheimer, Silke; Grin, Iwan; Trunk, Thomas; Luhrmann, Anja & Gier, Jan-Willem de [Show all 7 contributors for this article] (2018). Revealing the mechanisms of membrane protein export by virulence-associated bacterial secretion systems. Nature Communications. 9:3467, p. 1–10. doi: 10.1038/s41467-018-05969-w. Full text in Research Archive
• Trunk, Thomas; Khalil, Hawzeen Salah & Leo, Jack Christopher (2018). Bacterial autoaggregation. AIMS Microbiology. 4(1), p. 140–164. doi: 10.3934/microbiol.2018.1.140. Full text in Research Archive Show summary

  Many bacteria, both environmental and pathogenic, exhibit the property of autoaggregation. In autoaggregation (sometimes also called autoagglutination or flocculation), bacteria of the same type form multicellular clumps that eventually settle at the bottom of culture tubes. Autoaggregation is generally mediated by self-recognising surface structures, such as proteins and exopolysaccharides, which we term collectively as autoagglutinins. Although a widespread phenomenon, in most cases the function of autoaggregation is poorly understood, though there is evidence to show that aggregating bacteria are protected from environmental stresses or host responses. Autoaggregation is also often among the first steps in forming biofilms. Here, we review the current knowledge on autoaggregation, the role of autoaggregation in biofilm formation and pathogenesis, and molecular mechanisms leading to aggregation using specific examples.

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• Trunk, Thomas; Casasanta, Michael; Slade, Daniel J. & Leo, Jack Christopher (2019). COMPARISON AND ENZYMATIC CHARACTERIZATION OF TYPE VD PATATIN-LIKE LIPASES. Full text in Research Archive
• Trunk, Thomas; Casasanta, Michael; Slade, Daniel J. & Leo, Jack Christopher (2019). Comparison and enzymatic characterization of type Vd patatin-like lipases. Full text in Research Archive
• Trunk, Thomas; Morth, Jens Preben; Slade, Daniel; Casasanta, Michael & Leo, Jack Christopher (2018). COMPARISON AND ENZYMATIC CHARACTERIZATION OF TYPE VD PATATIN-LIKE LIPASES. Full text in Research Archive
• Trunk, Thomas; Casasanta, Michael A.; Slade, Daniel J. & Leo, Jack Christopher (2018). Comparison and enzymatic characterization of Type Vd patatin-like lipases. Full text in Research Archive
• Trunk, Thomas; Casasanta, Michael; Slade, Daniel J. & Leo, Jack Christopher (2018). COMPARISON AND ENZYMATIC CHARACTERIZATION OF TYPE VD PATATIN-LIKE LIPASES. Full text in Research Archive
• Trunk, Thomas; Casasanta, Michael; Slade, Daniel J. & Leo, Jack Christopher (2018). COMPARISON AND ENZYMATIC CHARACTERIZATION OF TYPE VD PATATIN-LIKE LIPASES. Full text in Research Archive
• Trunk, Thomas; Morth, Jens Preben; Slade, Daniel & Leo, Jack Christopher (2017). COMPARISON AND ENZYMATIC CHARACTERIZATION OF TYPE VD PATATIN-LIKE LIPASES. Full text in Research Archive
• Trunk, Thomas; Slade, Daniel & Leo, Jack Christopher (2017). COMPARISON AND ENZYMATIC CHARACTERIZATION OF TYPE VD PATATIN-LIKE LIPASES. Full text in Research Archive

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