101
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Migoń D, Jaśkiewicz M, Neubauer D, Bauer M, Sikorska E, Kamysz E, Kamysz W. Alanine Scanning Studies of the Antimicrobial Peptide Aurein 1.2. Probiotics Antimicrob Proteins 2020; 11:1042-1054. [PMID: 30569430 PMCID: PMC6695355 DOI: 10.1007/s12602-018-9501-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
Antimicrobial peptides (AMPs) are compounds widely distributed in nature that display activity against a broad spectrum of pathogens. Amphibian skin, as an organ rich in pharmacologically active peptides, appears to be an interesting source of novel AMPs. Aurein 1.2 (GLFDIIKKIAESF-NH2) is a short 13-residue antimicrobial peptide primarily isolated from the skin secretions of Australian bell frogs. In this study, the alanine scan of aurein 1.2 was performed to investigate the effect of each amino acid residue on its biological and physico-chemical properties. The biological studies included determination of minimum inhibitory concentration, activity against biofilm, and inhibitory effect on its formation. Moreover, the hemolytic activity as well as serum stability was determined. The hydrophobicity of peptides and their self-assembly were investigated using reversed-phase chromatography. In addition, their helicity was calculated from circular dichroism spectra. The results not only provided information on structure-activity relationship of aurein 1.2 but also gave insights into design of novel analogs of AMPs in the future.
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Affiliation(s)
- Dorian Migoń
- Department of Inorganic Chemistry, Faculty of Pharmacy, Medical University of Gdańsk, Al. Gen. J. Hallera 107, 80-416, Gdańsk, Poland. .,Polpharma Biologics, Gdańsk, Poland.
| | - Maciej Jaśkiewicz
- Department of Inorganic Chemistry, Faculty of Pharmacy, Medical University of Gdańsk, Al. Gen. J. Hallera 107, 80-416, Gdańsk, Poland
| | - Damian Neubauer
- Department of Inorganic Chemistry, Faculty of Pharmacy, Medical University of Gdańsk, Al. Gen. J. Hallera 107, 80-416, Gdańsk, Poland
| | - Marta Bauer
- Department of Inorganic Chemistry, Faculty of Pharmacy, Medical University of Gdańsk, Al. Gen. J. Hallera 107, 80-416, Gdańsk, Poland
| | | | | | - Wojciech Kamysz
- Department of Inorganic Chemistry, Faculty of Pharmacy, Medical University of Gdańsk, Al. Gen. J. Hallera 107, 80-416, Gdańsk, Poland
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102
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Tuerkova A, Kabelka I, Králová T, Sukeník L, Pokorná Š, Hof M, Vácha R. Effect of helical kink in antimicrobial peptides on membrane pore formation. eLife 2020; 9:47946. [PMID: 32167466 PMCID: PMC7069690 DOI: 10.7554/elife.47946] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Accepted: 02/18/2020] [Indexed: 12/19/2022] Open
Abstract
Every cell is protected by a semipermeable membrane. Peptides with the right properties, for example Antimicrobial peptides (AMPs), can disrupt this protective barrier by formation of leaky pores. Unfortunately, matching peptide properties with their ability to selectively form pores in bacterial membranes remains elusive. In particular, the proline/glycine kink in helical peptides was reported to both increase and decrease antimicrobial activity. We used computer simulations and fluorescence experiments to show that a kink in helices affects the formation of membrane pores by stabilizing toroidal pores but disrupting barrel-stave pores. The position of the proline/glycine kink in the sequence further controls the specific structure of toroidal pore. Moreover, we demonstrate that two helical peptides can form a kink-like connection with similar behavior as one long helical peptide with a kink. The provided molecular-level insight can be utilized for design and modification of pore-forming antibacterial peptides or toxins.
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Affiliation(s)
- Alzbeta Tuerkova
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice, Czech Republic.,National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice, Czech Republic
| | - Ivo Kabelka
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice, Czech Republic.,National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice, Czech Republic
| | - Tereza Králová
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice, Czech Republic
| | - Lukáš Sukeník
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice, Czech Republic.,Department of Condensed Matter Physics, Faculty of Science, Masaryk University, Kotlářská, Czech Republic
| | - Šárka Pokorná
- J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences, Prague, Czech Republic
| | - Martin Hof
- J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences, Prague, Czech Republic
| | - Robert Vácha
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice, Czech Republic.,National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice, Czech Republic.,Department of Condensed Matter Physics, Faculty of Science, Masaryk University, Kotlářská, Czech Republic
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103
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Amabili P, Biavasco F, Brenciani A, Citterio B, Corbisiero D, Ferrazzano L, Fioriti S, Guerra G, Orena M, Rinaldi S. Simple amphiphilic α-hydrazido acids: Rational design, synthesis, and in vitro bioactivity profile of a novel class of potential antimicrobial compounds. Eur J Med Chem 2020; 189:112072. [DOI: 10.1016/j.ejmech.2020.112072] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Revised: 01/10/2020] [Accepted: 01/13/2020] [Indexed: 01/07/2023]
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104
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Borocci S, Della Pelle G, Ceccacci F, Olivieri C, Buonocore F, Porcelli F. Structural Analysis and Design of Chionodracine-Derived Peptides Using Circular Dichroism and Molecular Dynamics Simulations. Int J Mol Sci 2020; 21:E1401. [PMID: 32092980 PMCID: PMC7073106 DOI: 10.3390/ijms21041401] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 02/12/2020] [Accepted: 02/17/2020] [Indexed: 12/18/2022] Open
Abstract
Antimicrobial peptides have been identified as one of the alternatives to the extensive use of common antibiotics as they show a broad spectrum of activity against human pathogens. Among these is Chionodracine (Cnd), a host-defense peptide isolated from the Antarctic icefish Chionodraco hamatus, which belongs to the family of Piscidins. Previously, we demonstrated that Cnd and its analogs display high antimicrobial activity against ESKAPE pathogens (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa and Enterobacter species). Herein, we investigate the interactions with lipid membranes of Cnd and two analogs, Cnd-m3 and Cnd-m3a, showing enhanced potency. Using a combination of Circular Dichroism, fluorescence spectroscopy, and all-atom Molecular Dynamics (MD) simulations, we determined the structural basis for the different activity among these peptides. We show that all peptides are predominantly unstructured in water and fold, preferentially as α-helices, in the presence of lipid vesicles of various compositions. Through a series of MD simulations of 400 ns time scale, we show the effect of mutations on the structure and lipid interactions of Cnd and its analogs. By explaining the structural basis for the activity of these analogs, our findings provide structural templates to design minimalistic peptides for therapeutics.
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Affiliation(s)
- Stefano Borocci
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (S.B.); (G.D.P.); (F.B.)
- CNR—Institute for Biological Systems, Via Salaria, Km 29.500, 00015 Monterotondo, 00015 Rome, Italy
| | - Giulia Della Pelle
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (S.B.); (G.D.P.); (F.B.)
| | - Francesca Ceccacci
- CNR—Institute for Biological Systems, Sede Secondaria di Roma-Meccanismi di Reazione, 00185 Rome, Italy;
| | - Cristina Olivieri
- Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, MN 55455, USA;
| | - Francesco Buonocore
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (S.B.); (G.D.P.); (F.B.)
| | - Fernando Porcelli
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (S.B.); (G.D.P.); (F.B.)
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105
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Della Pelle G, Perà G, Belardinelli MC, Gerdol M, Felli M, Crognale S, Scapigliati G, Ceccacci F, Buonocore F, Porcelli F. Trematocine, a Novel Antimicrobial Peptide from the Antarctic Fish Trematomus bernacchii: Identification and Biological Activity. Antibiotics (Basel) 2020; 9:E66. [PMID: 32041161 PMCID: PMC7168153 DOI: 10.3390/antibiotics9020066] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Revised: 02/03/2020] [Accepted: 02/05/2020] [Indexed: 01/02/2023] Open
Abstract
Antimicrobial peptides (AMPs) are short peptides active against a wide range of pathogens and, therefore, they are considered a useful alternative to conventional antibiotics. We have identified a new AMP in a transcriptome derived from the Antarctic fish Trematomus bernacchii. This peptide, named Trematocine, has been investigated for its expression both at the basal level and after in vivo immunization with an endemic Antarctic bacterium (Psychrobacter sp. TAD1). Results agree with the expected behavior of a fish innate immune component, therefore we decided to synthesize the putative mature sequence of Trematocine to determine the structure, the interaction with biological membranes, and the biological activity. We showed that Trematocine folds into a α-helical structure in the presence of both zwitterionic and anionic charged vesicles. We demonstrated that Trematocine has a highly specific interaction with anionic charged vesicles and that it can kill Gram-negative bacteria, possibly via a carpet like mechanism. Moreover, Trematocine showed minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) values against selected Gram-positive and Gram-negative bacteria similar to other AMPs isolated from Antarctic fishes. The peptide is a possible candidate for a new drug as it does not show any haemolytic or cytotoxic activity against mammalian cells at the concentration needed to kill the tested bacteria.
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Affiliation(s)
- Giulia Della Pelle
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Giulia Perà
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Maria Cristina Belardinelli
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Marco Gerdol
- Department of Life Sciences, University of Trieste, Trieste 34128, Italy;
| | - Martina Felli
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Silvia Crognale
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Giuseppe Scapigliati
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Francesca Ceccacci
- CNR—Institute for Biological Systems, Sede Secondaria di Roma-Meccanismi di Reazione, 00185 Rome, Italy;
| | - Francesco Buonocore
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
| | - Fernando Porcelli
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, 01100 Viterbo, Italy; (G.D.P.); (G.P.); (M.C.B.); (M.F.); (S.C.); (G.S.); (F.P.)
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106
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Chen X, Ji S, Li A, Liu H, Fei H. Toggling Preassembly with Single-Site Mutation Switches the Cytotoxic Mechanism of Cationic Amphipathic Peptides. J Med Chem 2020; 63:1132-1141. [PMID: 31927997 DOI: 10.1021/acs.jmedchem.9b01458] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Precise regulation of membrane-active peptide activity is a frontier of research to facilitate its applicational translation. A clear understanding of how a peptide's physicochemical properties determine its mode of action (MOA) will aid the process. Herein, anionic glutamate residue-based scanning was applied to the hydrophobic surface of a self-assembling lysine-rich cationic amphipathic peptide (CAP) KL1. Single-site mutations from leucine to glutamate dramatically changed the MOA of all mutants from membranolytic to nonlytic. An apoptosis-inducing mutant L2E unable to self-assemble under extracellular anions exhibited a different conformational transformation process in the amphiphilic environment than KL1. Further adjustment of the overall positive charge allowed regulation of cytotoxic potency without affecting the MOA determined by the lack of preassembly formation. Compared with KL1, hemolytic toxicities of nonmembranolytic peptides were greatly reduced, with safety indices increased. This work thus provided novel insights into and integrated rationales on the improvement of CAPs for both anticancer activity and safety profile.
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Affiliation(s)
- Xiaolong Chen
- School of Nano-Tech and Nano-Bionics , University of Science and Technology of China , Hefei 230026 , P R China.,CAS Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine , Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences , Suzhou 215123 , P R China
| | - Shuangshuang Ji
- School of Nano-Tech and Nano-Bionics , University of Science and Technology of China , Hefei 230026 , P R China.,CAS Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine , Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences , Suzhou 215123 , P R China
| | - Ang Li
- School of Nano-Tech and Nano-Bionics , University of Science and Technology of China , Hefei 230026 , P R China.,CAS Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine , Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences , Suzhou 215123 , P R China
| | - Hanjie Liu
- School of Nano-Tech and Nano-Bionics , University of Science and Technology of China , Hefei 230026 , P R China.,CAS Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine , Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences , Suzhou 215123 , P R China
| | - Hao Fei
- School of Nano-Tech and Nano-Bionics , University of Science and Technology of China , Hefei 230026 , P R China.,CAS Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine , Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences , Suzhou 215123 , P R China
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107
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Tavares TD, Antunes JC, Ferreira F, Felgueiras HP. Biofunctionalization of Natural Fiber-Reinforced Biocomposites for Biomedical Applications. Biomolecules 2020; 10:E148. [PMID: 31963279 PMCID: PMC7023167 DOI: 10.3390/biom10010148] [Citation(s) in RCA: 40] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Revised: 01/13/2020] [Accepted: 01/15/2020] [Indexed: 02/07/2023] Open
Abstract
In the last ten years, environmental consciousness has increased worldwide, leading to the development of eco-friendly materials to replace synthetic ones. Natural fibers are extracted from renewable resources at low cost. Their combination with synthetic polymers as reinforcement materials has been an important step forward in that direction. The sustainability and excellent physical and biological (e.g., biocompatibility, antimicrobial activity) properties of these biocomposites have extended their application to the biomedical field. This paper offers a detailed overview of the extraction and separation processes applied to natural fibers and their posterior chemical and physical modifications for biocomposite fabrication. Because of the requirements for biomedical device production, specialized biomolecules are currently being incorporated onto these biocomposites. From antibiotics to peptides and plant extracts, to name a few, this review explores their impact on the final biocomposite product, in light of their individual or combined effect, and analyzes the most recurrent strategies for biomolecule immobilization.
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Affiliation(s)
| | | | | | - Helena P. Felgueiras
- Centre for Textile Science and Technology (2C2T), Department of Textile Engineering, University of Minho, Campus of Azurém, 4800-058 Guimarães, Portugal; (T.D.T.); (J.C.A.); (F.F.)
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108
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Liang Y, Zhang X, Yuan Y, Bao Y, Xiong M. Role and modulation of the secondary structure of antimicrobial peptides to improve selectivity. Biomater Sci 2020; 8:6858-6866. [PMID: 32815940 DOI: 10.1039/d0bm00801j] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Helix is a two-edged sword for AMPs, and conformational modulation of AMPs can control the balance between antimicrobial activity and toxicity.
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Affiliation(s)
- Yangbin Liang
- Guangzhou First People's Hospital
- School of Biomedical Sciences and Engineering
- South China University of Technology
- Guangzhou
- P. R. China
| | - Xinshuang Zhang
- Guangzhou First People's Hospital
- School of Biomedical Sciences and Engineering
- South China University of Technology
- Guangzhou
- P. R. China
| | - Yueling Yuan
- Guangzhou First People's Hospital
- School of Biomedical Sciences and Engineering
- South China University of Technology
- Guangzhou
- P. R. China
| | - Yan Bao
- Medical Research Center
- Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation
- Sun Yat-sen Memorial Hospital
- Sun Yat-sen University
- Guangzhou
| | - Menghua Xiong
- Guangzhou First People's Hospital
- School of Biomedical Sciences and Engineering
- South China University of Technology
- Guangzhou
- P. R. China
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109
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Yang LB, Guo G, Zhao XY, Su PP, Fu P, Peng J, Xiu JF, Li BY. Antifungal Activity and Physicochemical Properties of a Novel Antimicrobial Protein AMP-17 from Musca domestica. Pol J Microbiol 2019; 68:383-390. [PMID: 31880884 PMCID: PMC7256848 DOI: 10.33073/pjm-2019-041] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2019] [Revised: 08/01/2019] [Accepted: 08/04/2019] [Indexed: 12/18/2022] Open
Abstract
Antimicrobial peptides (AMPs) are cationic small peptide chains that have good antimicrobial activity against a variety of bacteria, fungi, and viruses. AMP-17 is a recombinant insect AMP obtained by a prokaryotic expression system. However, the full antifungal activity, physicochemical characteristics, and cytotoxicity of AMP-17 were previously unknown. AMP-17 was shown to have good antifungal activity against five pathogenic fungi, with minimum inhibitory concentrations (MIC) of 9.375-18.75 μg/ml, and minimum fungicidal concentrations (MFC) of 18.75-37.5 μg/ml. Notably, the antifungal activity of AMP-17 against Cryptococcus neoformans was superior to that of other Candida spp. In addition, the hemolytic rate of AMP-17 was only 1.47%, even at the high concentration of 16× MIC. AMP-17 was insensitive to temperature and high salt ion concentration, with temperatures of 98°C and -80°C, and NaCl and MgCl2 concentrations of 50-200 mmol/l, having no significant effect on antifungal activity. However, AMP-17 was sensitive to proteases, trypsin, pepsin, and proteinase K. The elucidation of antifungal activity, physicochemical properties and cytotoxicity of AMP-17 provided an experimental basis for its safety evaluation and application, as well as indicated that AMP-17 might be a promising drug. Antimicrobial peptides (AMPs) are cationic small peptide chains that have good antimicrobial activity against a variety of bacteria, fungi, and viruses. AMP-17 is a recombinant insect AMP obtained by a prokaryotic expression system. However, the full antifungal activity, physicochemical characteristics, and cytotoxicity of AMP-17 were previously unknown. AMP-17 was shown to have good antifungal activity against five pathogenic fungi, with minimum inhibitory concentrations (MIC) of 9.375–18.75 μg/ml, and minimum fungicidal concentrations (MFC) of 18.75–37.5 μg/ml. Notably, the antifungal activity of AMP-17 against Cryptococcus neoformans was superior to that of other Candida spp. In addition, the hemolytic rate of AMP-17 was only 1.47%, even at the high concentration of 16× MIC. AMP-17 was insensitive to temperature and high salt ion concentration, with temperatures of 98°C and –80°C, and NaCl and MgCl2 concentrations of 50–200 mmol/l, having no significant effect on antifungal activity. However, AMP-17 was sensitive to proteases, trypsin, pepsin, and proteinase K. The elucidation of antifungal activity, physicochemical properties and cytotoxicity of AMP-17 provided an experimental basis for its safety evaluation and application, as well as indicated that AMP-17 might be a promising drug.
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Affiliation(s)
- Long-Bing Yang
- School of Basic Medical Sciences, Guizhou Medical University , Guiyang , China ; Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, Guizhou Medical University , Guiyang , China
| | - Guo Guo
- School of Basic Medical Sciences, Guizhou Medical University , Guiyang , China ; Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, Guizhou Medical University , Guiyang , China
| | - Xin-Yu Zhao
- School of Basic Medical Sciences, Guizhou Medical University , Guiyang , China ; Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, Guizhou Medical University , Guiyang , China
| | - Pei-Pei Su
- School of Basic Medical Sciences, Guizhou Medical University , Guiyang , China ; Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, Guizhou Medical University , Guiyang , China
| | - Ping Fu
- School of Basic Medical Sciences, Guizhou Medical University , Guiyang , China
| | - Jian Peng
- Research Center of Medical Biotechnology Engineering, Guizhou Medical University , Guiyang , China
| | - Jiang-Fan Xiu
- School of Basic Medical Sciences, Guizhou Medical University , Guiyang , China
| | - Bo-Yan Li
- Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education, Guizhou Medical University , Guiyang , China ; School of Food Science, Guizhou Medical University , Guiyang , China
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110
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Li H, Nantasenamat C. Toward insights on determining factors for high activity in antimicrobial peptides via machine learning. PeerJ 2019; 7:e8265. [PMID: 31875156 PMCID: PMC6927346 DOI: 10.7717/peerj.8265] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2019] [Accepted: 11/21/2019] [Indexed: 01/02/2023] Open
Abstract
The continued and general rise of antibiotic resistance in pathogenic microbes is a well-recognized global threat. Host defense peptides (HDPs), a component of the innate immune system have demonstrated promising potential to become a next generation antibiotic effective against a plethora of pathogens. While the effectiveness of antimicrobial HDPs has been extensively demonstrated in experimental studies, theoretical insights on the mechanism by which these peptides function is comparably limited. In particular, experimental studies of AMP mechanisms are limited in the number of different peptides investigated and the type of peptide parameters considered. This study makes use of the random forest algorithm for classifying the antimicrobial activity as well for identifying molecular descriptors underpinning the antimicrobial activity of investigated peptides. Subsequent manual interpretation of the identified important descriptors revealed that polarity-solubility are necessary for the membrane lytic antimicrobial activity of HDPs.
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Affiliation(s)
- Hao Li
- Center of Data Mining and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok, Thailand
| | - Chanin Nantasenamat
- Center of Data Mining and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok, Thailand
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111
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Yuen TY, Brown CJ, Tan YS, Johannes CW. Synthesis of Chiral Alkenyl Cyclopropane Amino Acids for Incorporation into Stapled Peptides. J Org Chem 2019; 85:1556-1566. [DOI: 10.1021/acs.joc.9b02659] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Tsz Ying Yuen
- Institute of Chemical and Engineering Sciences, Agency for Science, Technology and Research, 8 Biomedical Grove, #07-01, Neuros, Singapore 138665
| | - Christopher J. Brown
- P53 Laboratory, Agency for Science, Technology and Research, 8A Biomedical Grove, #06-06, Immunos, Singapore 138648
| | - Yaw Sing Tan
- Bioinformatics Institute, Agency for Science, Technology and Research, 30 Biopolis Street, #07-01, Matrix, Singapore 138671
| | - Charles W. Johannes
- P53 Laboratory, Agency for Science, Technology and Research, 8A Biomedical Grove, #06-06, Immunos, Singapore 138648
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112
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Frederiksen N, Hansen PR, Björkling F, Franzyk H. Peptide/Peptoid Hybrid Oligomers: The Influence of Hydrophobicity and Relative Side-Chain Length on Antibacterial Activity and Cell Selectivity. Molecules 2019; 24:E4429. [PMID: 31817108 PMCID: PMC6943742 DOI: 10.3390/molecules24244429] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Revised: 11/20/2019] [Accepted: 11/26/2019] [Indexed: 02/07/2023] Open
Abstract
Previous optimisation studies of peptide/peptoid hybrids typically comprise comparison of structurally related analogues displaying different oligomer length and diverse side chains. The present work concerns a systematically constructed series of 16 closely related 12-mer oligomers with an alternating cationic/hydrophobic design, representing a wide range of hydrophobicity and differences in relative side-chain lengths. The aim was to explore and rationalise the structure-activity relationships within a subclass of oligomers displaying variation of three structural features: (i) cationic side-chain length, (ii) hydrophobic side-chain length, and (iii) type of residue that is of a flexible peptoid nature. Increased side-chain length of cationic residues led to reduced hydrophobicity till the side chains became more extended than the aromatic/hydrophobic side chains, at which point hydrophobicity increased slightly. Evaluation of antibacterial activity revealed that analogues with lowest hydrophobicity exhibited reduced activity against E. coli, while oligomers with the shortest cationic side chains were most potent against P. aeruginosa. Thus, membrane-disruptive interaction with P. aeruginosa appears to be promoted by a hydrophobic surface of the oligomers (comprised of the aromatic groups shielding the cationic side chains). Peptidomimetics with short cationic side chains exhibit increased hemolytic properties as well as give rise to decreased HepG2 (hepatoblastoma G2 cell line) cell viability. An optimal hydrophobicity window could be defined by a threshold of minimal hydrophobicity conferring activity toward E. coli and a threshold for maximal hydrophobicity, beyond which cell selectivity was lost.
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Affiliation(s)
| | | | | | - Henrik Franzyk
- Department of Drug Design and Pharmacology, Faculty of Health and Medical Sciences, University of Copenhagen, Jagtvej 162, DK-2100 Copenhagen, Denmark; (N.F.); (P.R.H.); (F.B.)
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113
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Abstract
The discovery of antibiotics marked a golden age in the revolution of human medicine. However, decades later, bacterial infections remain a global healthcare threat, and a return to the pre-antibiotic era seems inevitable if stringent measures are not adopted to curb the rapid emergence and spread of multidrug resistance and the indiscriminate use of antibiotics. In hospital settings, multidrug resistant (MDR) pathogens, including carbapenem-resistant Pseudomonas aeruginosa, vancomycin-resistant enterococci (VRE), methicillin-resistant Staphylococcus aureus (MRSA), and extended-spectrum β-lactamases (ESBL) bearing Acinetobacter baumannii, Escherichia coli, and Klebsiella pneumoniae are amongst the most problematic due to the paucity of treatment options, increased hospital stay, and exorbitant medical costs. Antimicrobial peptides (AMPs) provide an excellent potential strategy for combating these threats. Compared to empirical antibiotics, they show low tendency to select for resistance, rapid killing action, broad-spectrum activity, and extraordinary clinical efficacy against several MDR strains. Therefore, this review highlights multidrug resistance among nosocomial bacterial pathogens and its implications and reiterates the importance of AMPs as next-generation antibiotics for combating MDR superbugs.
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Affiliation(s)
- James Mwangi
- Key Laboratory of Bioactive Peptides of Yunnan Province/Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences and Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China.,Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming Yunnan 650204, China.,Sino-African Joint Research Center, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China
| | - Xue Hao
- Key Laboratory of Bioactive Peptides of Yunnan Province/Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences and Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China
| | - Ren Lai
- Key Laboratory of Bioactive Peptides of Yunnan Province/Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences and Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China.,Sino-African Joint Research Center, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China.,Institutes for Drug Discovery and Development, Chinese Academy of Sciences, Shanghai 201203, China.,KIZ-CUHK Joint Laboratory of Bioresources and Molecular Research in Common Diseases, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China.,Center for Biosafety Mega-Science, Chinese Academy of Sciences, Wuhan Hubei 430071, China
| | - Zhi-Ye Zhang
- Key Laboratory of Bioactive Peptides of Yunnan Province/Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences and Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China, E-mail:
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114
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Short tryptophan- and arginine-rich peptide shows efficacy against clinical methicillin-resistant Staphylococcus aureus strains isolated from skin and soft tissue infections. Sci Rep 2019; 9:17176. [PMID: 31748670 PMCID: PMC6868180 DOI: 10.1038/s41598-019-53926-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2019] [Accepted: 11/07/2019] [Indexed: 11/28/2022] Open
Abstract
In recent years methicillin-resistant Staphylococcus aureus has posed a challenge in treating skin and soft tissue infections. Finding new antimicrobial agents has therefore become imperative. We evaluated the in vitro antimicrobial activity of a synthetic peptide, P6, against multidrug resistant clinical strains of Staphylococcus aureus isolated from skin and soft tissue infections. The P6 antimicrobial effect was evaluated in vitro by determining MIC/MBC, the ratio of live/dead cells and the effects induced at membrane level. The therapeutic efficiency was determined against human skin cells. P6 inhibited growth for all strains between 8 and 16 mg/L and killed all bacterial strains at 16 mg/L. The therapeutic potential was found to be 30 and 15 in the presence of BSA. We showed that P6 localizes at membrane level, where it acts slowly, by depolarizing it and affecting its integrity. P6 can be considered a good candidate for use as an antimicrobial agent in topical applications.
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115
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The Analogs of Temporin-GHa Exhibit a Broader Spectrum of Antimicrobial Activity and a Stronger Antibiofilm Potential against Staphylococcus aureus. Molecules 2019; 24:molecules24224173. [PMID: 31752079 PMCID: PMC6891419 DOI: 10.3390/molecules24224173] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Revised: 11/09/2019] [Accepted: 11/15/2019] [Indexed: 12/01/2022] Open
Abstract
The abuse of antibiotics has led to the emergence of multidrug-resistant bacteria, which is becoming a serious worldwide problem people have to face. In our previous study, temporin-GHa (GHa) cloned from Hylarana guentheri showed antimicrobial activity against Gram-positive bacteria. In order to improve its therapeutic potential, we used a template-based and a database-assisted design to obtain three derived peptides by replacing the histidine at both ends of GHa with lysine, which exhibited faster and stronger bactericidal activity and a broader spectrum than the parent peptide. GHaK and GHa4K targeted to the bacterial membrane to exert their antibacterial activities at a faster membrane damage rate. The derived peptides inhibited the initial adhesion and the formation of Staphylococcus aureus biofilms, and eradicated the mature biofilms, which indicated that the derived peptides effectively penetrated the biofilm and killed bacteria. The therapeutic index (TI) and cell selectivity index (CSI) of the derived peptides increased significantly, which means a broader therapeutic window of the derived peptides. The derived peptides with improved activity and cell selectivity have the potential to be the promising candidates for the treatment of S. aureus infections. Our research also provides new insights into the design and development of antimicrobial peptides.
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116
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Dey R, De K, Mukherjee R, Ghosh S, Haldar J. Small antibacterial molecules highly active against drug-resistant Staphylococcus aureus. MEDCHEMCOMM 2019; 10:1907-1915. [PMID: 32206237 PMCID: PMC7069404 DOI: 10.1039/c9md00329k] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2019] [Accepted: 07/26/2019] [Indexed: 12/14/2022]
Abstract
The rapid growth of antibiotic resistance in Staphylococcus aureus coupled with their biofilm forming ability has made the infections difficult to treat with conventional antibiotics. This has created a massive threat towards public health and is a huge concern worldwide. Aiming to address this challenging issue, herein we report a new class of small antibacterial molecules (SAMs) with high antibacterial activity against multidrug-resistant S. aureus. The design principle of the molecules was based on the variation of hydrophobic/hydrophilic balance through incorporation of two quaternary ammonium groups, ethanol moieties, non-peptidic amide bonds and aliphatic chains. The lead compound, identified through a comprehensive analysis of structure-activity relationships, displayed high activity against clinical isolates of methicillin-resistant S. aureus (MRSA) and vancomycin-resistant S. aureus (VRSA) with MIC values in the range of 1-4 μg mL-1. More importantly, this compound was capable of killing stationary phase bacteria and disrupting established biofilms of MRSA. Additionally, the compound revealed minimum toxicity towards human erythrocytes (HC50 = 577 μg mL-1) and did not show significant toxicity towards mammalian cells (MDCK and A549) up to 128 μg mL-1. Remarkably, the incorporation of non-peptidic amide bonds made the compounds less susceptible to degradation in human plasma, serum and mouse liver homogenate. Taken together, the results therefore indicate great promise for this class of molecules to be developed as potent antibacterial agents in treating infections caused by drug-resistant S. aureus.
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Affiliation(s)
- Rajib Dey
- Antimicrobial Research Laboratory , New Chemistry Unit , Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR) , Jakkur , Bangalore 560064 , India .
| | - Kathakali De
- Antimicrobial Research Laboratory , New Chemistry Unit , Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR) , Jakkur , Bangalore 560064 , India .
| | - Riya Mukherjee
- Antimicrobial Research Laboratory , New Chemistry Unit , Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR) , Jakkur , Bangalore 560064 , India .
| | - Sreyan Ghosh
- Antimicrobial Research Laboratory , New Chemistry Unit , Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR) , Jakkur , Bangalore 560064 , India .
| | - Jayanta Haldar
- Antimicrobial Research Laboratory , New Chemistry Unit , Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR) , Jakkur , Bangalore 560064 , India .
- School of Advanced Materials , Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR) , Jakkur , Bangalore 560064 , India
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117
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Zhu J, Huang Y, Chen M, Hu C, Chen Y. Functional Synergy Of Antimicrobial Peptides And Chlorhexidine Acetate Against Gram-Negative/Gram-Positive Bacteria And A Fungus In Vitro And In Vivo. Infect Drug Resist 2019; 12:3227-3239. [PMID: 31686873 PMCID: PMC6800562 DOI: 10.2147/idr.s218778] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2019] [Accepted: 09/25/2019] [Indexed: 01/10/2023] Open
Abstract
Background and purpose To reduce the resistance and allergic reaction to chlorhexidine acetate (CHA) in the current treatment of (Bacterial vaginosis) BV and (vulvovaginal candidiasis) VVC in female vaginitis. In this study, the antimicrobial activities and mechanism of action of the synergistic effects of antimicrobial peptides (AMPs) HPRP-A1 and HPRP-A2, and CHA, against Gram-negative and Gram-positive bacteria, and one fungus Candida albicans (C. albicans) were investigated in vitro and in mouse and rat vaginitis infection models in vivo. Results HPRP-A1, HPRP-A2 and CHA showed significant synergistic effects on the antimicrobial activities against different Gram-negative and Gram-positive bacteria and C. albicans. The combined application of HPRP-A2 and CHA exhibited strong synergistic effects in the mouse and rat vaginitis models caused by bacteria or C. albicans. Conclusion This study may prompt the development of new drug combinations against vaginitis infections, including mixed bacterial and fungal infections and multi-drug-resistant infections.
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Affiliation(s)
- Jie Zhu
- Key Laboratory for Molecular Enzymology and Engineering of the Ministry of Education, Jilin University, Changchun, People's Republic of China.,College of Life Sciences, Jilin University, Changchun, People's Republic of China
| | - Yibing Huang
- Key Laboratory for Molecular Enzymology and Engineering of the Ministry of Education, Jilin University, Changchun, People's Republic of China.,College of Life Sciences, Jilin University, Changchun, People's Republic of China
| | - Mingxia Chen
- Jiangsu ProteLight Pharmaceutical & Biotechnology Co., Ltd., Jiangyin, People's Republic of China
| | - Cuihua Hu
- International Research Centre for Nano Handling and Manufacturing, Changchun University of Science and Technology, Changchun, People's Republic of China
| | - Yuxin Chen
- Key Laboratory for Molecular Enzymology and Engineering of the Ministry of Education, Jilin University, Changchun, People's Republic of China.,College of Life Sciences, Jilin University, Changchun, People's Republic of China.,Jiangsu ProteLight Pharmaceutical & Biotechnology Co., Ltd., Jiangyin, People's Republic of China
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118
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Zawisza K, Sobierajska P, Nowak N, Kedziora A, Korzekwa K, Pozniak B, Tikhomirov M, Miller J, Mrowczynska L, Wiglusz RJ. Preparation and preliminary evaluation of bio-nanocomposites based on hydroxyapatites with antibacterial properties against anaerobic bacteria. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2019; 106:110295. [PMID: 31753350 DOI: 10.1016/j.msec.2019.110295] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2018] [Revised: 09/23/2019] [Accepted: 10/07/2019] [Indexed: 12/11/2022]
Abstract
Hexagonal nanocrystalline powders of the non-doped Ca10(PO4)6(OH)2 as well as activated with Ag+ and Eu3+ ions were synthesized by using different wet chemistry methods. Moreover, the obtained hydroxyapatite was loaded with Ag0, as well as nitroimidazole antimicrobials: metronidazole and tinidazole. The structural properties of the products were analyzed by X-ray diffraction (XRD), scanning (SEM) and transmission (TEM) electron microscopy as well as infrared (IR) and Raman spectroscopy. The photoluminescence properties of the Eu3+ and Ag+ co-doped Ca10(PO4)6(OH)2 were characterized via the PL emission, excitation spectra and the luminescence decay curve. The antimicrobial activity of the obtained materials against Prevotella bivia and Parabacteroides distasonis was studied. The cytotoxicity assessment was carried out on the human osteosarcoma cell line (U2OS) as well as human red blood cells (RBC). The choice of the in vitro model was based on the fact that U2OS is a cancer cell line derived from bone tissue which is rich in apatites that play a pivotal role in the extracellular matrix formation. RBCs are the most abundant blood cells and they are used as a cell model in the study of biocompatibility of new prepared biocompounds with potential medical applications. The obtained multifunctional materials do not exhibit the haemolytic activity, therefore, they could be used as a promising antimicrobial agent and for anaerobic bacteria.
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Affiliation(s)
- Katarzyna Zawisza
- Institute of Low Temperature and Structure Research, PAS, ul. Okolna 2, PL-50-422, Wroclaw, Poland
| | - Paulina Sobierajska
- Institute of Low Temperature and Structure Research, PAS, ul. Okolna 2, PL-50-422, Wroclaw, Poland
| | - Nicole Nowak
- Institute of Low Temperature and Structure Research, PAS, ul. Okolna 2, PL-50-422, Wroclaw, Poland
| | - Anna Kedziora
- Institute of Genetics and Microbiology, Wroclaw University, Przybyszewskiego 63, 51-148, Wroclaw, Poland
| | - Kamila Korzekwa
- Institute of Genetics and Microbiology, Wroclaw University, Przybyszewskiego 63, 51-148, Wroclaw, Poland
| | - Blazej Pozniak
- Department of Pharmacology and Toxicology, Faculty of Veterinary Medicine, Wrocław University of Environmental and Life Sciences, C. K. Norwida 31, 50-375, Wroclaw, Poland
| | - Marta Tikhomirov
- Department of Pharmacology and Toxicology, Faculty of Veterinary Medicine, Wrocław University of Environmental and Life Sciences, C. K. Norwida 31, 50-375, Wroclaw, Poland
| | - Julia Miller
- Department of Immunology, Pathophysiology and Veterinary Preventive Medicine, Faculty of Veterinary Medicine, Wrocław University of Environmental and Life Sciences, C. K. Norwida 31, 50-375, Wroclaw, Poland
| | - Lucyna Mrowczynska
- Adam Mickiewicz University, Faculty of Biology, Department of Cell Biology, Umultowska 89, 61-614, Poznan, Poland
| | - Rafal J Wiglusz
- Institute of Low Temperature and Structure Research, PAS, ul. Okolna 2, PL-50-422, Wroclaw, Poland.
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119
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Immunomodulatory Functions of the Human Cathelicidin LL-37 (aa 13-31)-Derived Peptides are Associated with Predicted α-Helical Propensity and Hydrophobic Index. Biomolecules 2019; 9:biom9090501. [PMID: 31540479 PMCID: PMC6769993 DOI: 10.3390/biom9090501] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2019] [Revised: 09/03/2019] [Accepted: 09/15/2019] [Indexed: 12/18/2022] Open
Abstract
The anti-endotoxin activity of the cationic peptide LL-37 and its derivative IG-19 is attributed to electrostatic interaction of the peptides’ positive charge with negatively charged bacterial lipopolysaccharides (LPS), and in part to the alteration of intracellular mechanisms independent of peptide binding to LPS. We examined the immunomodulatory responses induced by IG-19 and four IG-19-derived scrambled peptides (IG-19a–d), in the presence and absence of LPS, in macrophages and peripheral blood-derived mononuclear cells. All peptides had identical net charge (+5) and amino acid composition, but different hydrophobicity and α-helical propensity. Peptide IG-19 suppressed LPS-induced cytokine/chemokine production by >90%, IG-19a and IG-19b suppressed it by 40–50%, and IG-19c and IG-19d did not suppress cytokine/chemokine production at all. In silico prediction algorithms and the peptide retention time (RT) on a C18 RP HPLC column indicated a linear association between α-helical propensity and hydrophobicity with the ability of the peptides to inhibit LPS-induced responses. Peptide RT exhibited a significant correlation (>70%) between the suppression of LPS-induced cytokine/chemokine production and peptide-induced production of the anti-inflammatory cytokine IL-1RA. These results indicate that RT on a C18 column can be used as a predictor for the immunomodulatory functions of cationic peptides. Overall, we demonstrated that the immunomodulatory functions of LL-37-derived peptides with identical positive charge and amino acid composition are directly associated with the predicted α-helical propensity and hydrophobicity of the peptides.
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120
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Arpornsuwan T, Paveenkittiporn W, Jaresitthikunchai J, Roytrakul S. BAMP-28 Antimicrobial Peptide Against Different MALDI Biotype of Carbapenam Resistant Enterobacteriaceae. Int J Pept Res Ther 2019. [DOI: 10.1007/s10989-018-9743-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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121
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Zhong C, Liu T, Gou S, He Y, Zhu N, Zhu Y, Wang L, Liu H, Zhang Y, Yao J, Ni J. Design and synthesis of new N-terminal fatty acid modified-antimicrobial peptide analogues with potent in vitro biological activity. Eur J Med Chem 2019; 182:111636. [PMID: 31466017 DOI: 10.1016/j.ejmech.2019.111636] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Revised: 08/12/2019] [Accepted: 08/19/2019] [Indexed: 12/25/2022]
Abstract
Developing novel antimicrobial agents is a top priority in fighting against bacterial resistance. Thus, a series of new monomer and dimer peptides were designed and synthesized by conjugating fatty acids at the N-terminus of partial d-amino acid substitution analogues of anoplin and dimerization. The new peptides exhibited more efficient killing of gram-negative and gram-positive bacteria, including methicillin-resistant Staphylococcus aureus compared with the parent peptide anoplin, and the dimer peptides were superior to the monomer peptides. It was important that the new peptides displayed low impact on bacterial resistance development. In addition, the antimicrobial activities were not significantly influenced by a physiological salt environment. They also presented high stability in the presence of protease or serum. Almost all of the new peptides had better selectivity towards anionic bacterial membranes over zwitterionic mammalian cell membranes. Moreover, the new peptides displayed synergistic or additive effects when used together with the antibiotics rifampicin and polymyxin B. These results showed that the new peptides could also prevent the formation of bacterial biofilms. Furthermore, outer/inner membrane permeabilization and cytoplasmic membrane depolarization experiments revealed that the new peptides had strong membrane permeabilization and depolarization. Confocal laser scanning microscopy, flow cytometry analysis and scanning electron microscopy further demonstrated that the new peptides could damage the integrity of the bacterial membrane. Finally, a DNA-binding affinity assay showed that the new peptides could bind to bacterial DNA. In summary, the conjugation of fatty acids at the N-terminus of peptides and dimerization are promising strategies for obtaining potent antimicrobial agents.
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Affiliation(s)
- Chao Zhong
- Key Laboratory of Preclinical Study for New Drugs of Gansu Province, School of Basic Medical Sciences, Lanzhou University, Lanzhou, 730000, China; School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Tianqi Liu
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Sanhu Gou
- Key Laboratory of Preclinical Study for New Drugs of Gansu Province, School of Basic Medical Sciences, Lanzhou University, Lanzhou, 730000, China; School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Yongtao He
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Ningyi Zhu
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Yuewen Zhu
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Li Wang
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Hui Liu
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Yun Zhang
- School of Pharmacy, Lanzhou University, Lanzhou, 730000, China
| | - Jia Yao
- The First Hospital of Lanzhou University, Lanzhou, 730000, China
| | - Jingman Ni
- Key Laboratory of Preclinical Study for New Drugs of Gansu Province, School of Basic Medical Sciences, Lanzhou University, Lanzhou, 730000, China; School of Pharmacy, Lanzhou University, Lanzhou, 730000, China.
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Barreto-Santamaría A, Patarroyo ME, Curtidor H. Designing and optimizing new antimicrobial peptides: all targets are not the same. Crit Rev Clin Lab Sci 2019; 56:351-373. [DOI: 10.1080/10408363.2019.1631249] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Adriana Barreto-Santamaría
- Fundación Instituto de Inmunología de Colombia - FIDIC, Receptor-Ligand Department, Bogotá D.C, Colombia
- Universidad del Rosario, School of Medicine and Health Sciences, Bogotá D.C., Colombia
| | - Manuel E. Patarroyo
- Fundación Instituto de Inmunología de Colombia - FIDIC, Receptor-Ligand Department, Bogotá D.C, Colombia
- Universidad Nacional de Colombia - Bogotá, Faculty of Medicine, Bogotá D.C., Colombia
| | - Hernando Curtidor
- Fundación Instituto de Inmunología de Colombia - FIDIC, Receptor-Ligand Department, Bogotá D.C, Colombia
- Universidad del Rosario, School of Medicine and Health Sciences, Bogotá D.C., Colombia
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Kłodzińska SN, Pletzer D, Rahanjam N, Rades T, Hancock RE, Nielsen HM. Hyaluronic acid-based nanogels improve in vivo compatibility of the anti-biofilm peptide DJK-5. NANOMEDICINE-NANOTECHNOLOGY BIOLOGY AND MEDICINE 2019; 20:102022. [DOI: 10.1016/j.nano.2019.102022] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2019] [Revised: 05/18/2019] [Accepted: 05/24/2019] [Indexed: 10/26/2022]
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Yasir M, Dutta D, Willcox MDP. Mode of action of the antimicrobial peptide Mel4 is independent of Staphylococcus aureus cell membrane permeability. PLoS One 2019; 14:e0215703. [PMID: 31356627 PMCID: PMC6663011 DOI: 10.1371/journal.pone.0215703] [Citation(s) in RCA: 56] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 07/11/2019] [Indexed: 01/30/2023] Open
Abstract
Mel4 is a novel cationic peptide with potent activity against Gram-positive bacteria. The current study examined the anti-staphylococcal mechanism of action of Mel4 and its precursor peptide melimine. The interaction of peptides with lipoteichoic acid (LTA) and with the cytoplasmic membrane using DiSC(3)-5, Sytox green, Syto-9 and PI dyes were studied. Release of ATP and DNA/RNA from cells exposed to the peptides were determined. Bacteriolysis and autolysin-activated cell death were determined by measuring decreases in OD620nm and killing of Micrococcus lysodeikticus cells by cell-free media. Both peptides bound to LTA and rapidly dissipated the membrane potential (within 30 seconds) without affecting bacterial viability. Disturbance of the membrane potential was followed by the release of ATP (50% of total cellular ATP) by melimine and by Mel4 (20%) after 2 minutes exposure (p<0.001). Mel4 resulted in staphylococcal cells taking up PI with 3.9% cells predominantly stained after 150 min exposure, whereas melimine showed 34% staining. Unlike melimine, Mel4 did not release DNA/RNA. Cell-free media from Mel4 treated cells hydrolysed peptidoglycan and produced greater zones of inhibition against M. lysodeikticus lawn than melimine treated samples. These findings suggest that pore formation is unlikely to be involved in Mel4-mediated membrane destabilization for staphylococci, since there was no significant Mel4-induced PI staining and DNA/RNA leakage. It is likely that the S. aureus killing mechanism of Mel4 involves the release of autolysins followed by cell death. Whereas, membrane interaction is the primary bactericidal activity of melimine, which includes membrane depolarization, pore formation, release of cellular contents leading to cell death.
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Affiliation(s)
- Muhammad Yasir
- School of Optometry and Vision Science, University of New South Wales, Sydney, New South Wales, Australia
- * E-mail:
| | - Debarun Dutta
- School of Optometry and Vision Science, University of New South Wales, Sydney, New South Wales, Australia
- Ophthalmic Research Group, School of Health and Life Sciences, Aston University Birmingham, United Kingdom
| | - Mark D. P. Willcox
- School of Optometry and Vision Science, University of New South Wales, Sydney, New South Wales, Australia
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Carbon Nanomaterials and LED Irradiation as Antibacterial Strategies against Gram-Positive Multidrug-Resistant Pathogens. Int J Mol Sci 2019; 20:ijms20143603. [PMID: 31340560 PMCID: PMC6678746 DOI: 10.3390/ijms20143603] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 07/14/2019] [Accepted: 07/17/2019] [Indexed: 12/21/2022] Open
Abstract
Background: Due to current antibiotic resistance worldwide, there is an urgent need to find new alternative antibacterial approaches capable of dealing with multidrug-resistant pathogens. Most recent studies have demonstrated the antibacterial activity and non-cytotoxicity of carbon nanomaterials such as graphene oxide (GO) and carbon nanofibers (CNFs). On the other hand, light-emitting diodes (LEDs) have shown great potential in a wide range of biomedical applications. Methods: We investigated a nanotechnological strategy consisting of GO or CNFs combined with light-emitting diod (LED) irradiation as novel nanoweapons against two clinically relevant Gram-positive multidrug-resistant pathogens: methicillin-resistant Staphylococcus aureus (MRSA) and methicillin-resistant Staphylococcus epidermidis (MRSE). The cytotoxicity of GO and CNFs was studied in the presence of human keratinocyte HaCaT cells. Results: GO or CNFs exhibited no cytotoxicity and high antibacterial activity in direct contact with MRSE and MRSA cells. Furthermore, when GO or CNFs were illuminated with LED light, the MRSE and MRSA cells lost viability. The rate of decrease in colony forming units from 0 to 3 h, measured per mL, increased to 98.5 ± 1.6% and 95.8 ± 1.4% for GO and 99.5 ± 0.6% and 99.7 ± 0.2% for CNFs. Conclusions: This combined antimicrobial approach opens up many biomedical research opportunities and provides an enhanced strategy for the prevention and treatment of Gram-positive multidrug-resistant infections.
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Zhang P, Ma J, Zhang Q, Jian S, Sun X, Liu B, Nie L, Liu M, Liang S, Zeng Y, Liu Z. Monosaccharide Analogues of Anticancer Peptide R-Lycosin-I: Role of Monosaccharide Conjugation in Complexation and the Potential of Lung Cancer Targeting and Therapy. J Med Chem 2019; 62:7857-7873. [DOI: 10.1021/acs.jmedchem.9b00634] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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127
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Buonocore F, Picchietti S, Porcelli F, Della Pelle G, Olivieri C, Poerio E, Bugli F, Menchinelli G, Sanguinetti M, Bresciani A, Gennari N, Taddei AR, Fausto AM, Scapigliati G. Fish-derived antimicrobial peptides: Activity of a chionodracine mutant against bacterial models and human bacterial pathogens. DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY 2019; 96:9-17. [PMID: 30790604 DOI: 10.1016/j.dci.2019.02.012] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2018] [Revised: 02/07/2019] [Accepted: 02/15/2019] [Indexed: 06/09/2023]
Abstract
The increasing resistance to conventional antibiotics is an urgent problem that can be addressed by the discovery of new antimicrobial drugs such as antimicrobial peptides (AMPs). AMPs are components of innate immune system of eukaryotes and are not prone to the conventional mechanisms that are responsible of drug resistance. Fish are an important source of AMPs and, recently, we have isolated and characterized a new 22 amino acid residues peptide, the chionodracine (Cnd), from the Antarctic icefish Chionodraco hamatus. In this paper we focused on a new Cnd-derived mutant peptide, namely Cnd-m3a, designed to improve the selectivity against prokaryotic cells and the antimicrobial activity against human pathogens of the initial Cnd template. Cnd-m3a was used for immunization of rabbits, which gave rise to a polyclonal antibody able to detect the peptide. The interaction kinetic of Cnd-m3a with the Antarctic bacterium Psychrobacter sp. (TAD1) was imaged using a transmission electron microscopy (TEM) immunogold method. Initially the peptide was associated with the plasma membrane, but after 180 min of incubation, it was found in the cytoplasm interacting with a DNA target inside the bacterial cells. Using fluorescent probes we showed that the newly designed mutant can create pores in the outer membrane of the bacteria E. coli and Psychrobacter sp. (TAD1), confirming the results of TEM analysis. Moreover, in vitro assays demonstrated that Cnd-m3a is able to bind lipid vesicles of different compositions with a preference toward negatively charged ones, which mimics the prokaryotic cell. The Cnd-m3a peptide showed quite low hemolytic activity and weak cytotoxic effect against human primary and tumor cell lines, but high antimicrobial activity against selected Gram - human pathogens. These results highlighted the high potential of the Cnd-m3a peptide as a starting point for developing a new human therapeutic agent.
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Affiliation(s)
- Francesco Buonocore
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
| | - Simona Picchietti
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
| | - Fernando Porcelli
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
| | - Giulia Della Pelle
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
| | - Cristina Olivieri
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy; Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, 55455, USA.
| | - Elia Poerio
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
| | - Francesca Bugli
- Fondazione Policlinico Universitario "A. Gemelli" IRCCS, Dipartimento di Scienze di Laboratorio e Infettivologiche, Rome, Italy; Istituto di Microbiologia, Università Cattolica del Sacro Cuore, Rome, Italy.
| | - Giulia Menchinelli
- Fondazione Policlinico Universitario "A. Gemelli" IRCCS, Dipartimento di Scienze di Laboratorio e Infettivologiche, Rome, Italy; Istituto di Microbiologia, Università Cattolica del Sacro Cuore, Rome, Italy.
| | - Maurizio Sanguinetti
- Fondazione Policlinico Universitario "A. Gemelli" IRCCS, Dipartimento di Scienze di Laboratorio e Infettivologiche, Rome, Italy; Istituto di Microbiologia, Università Cattolica del Sacro Cuore, Rome, Italy.
| | | | - Nadia Gennari
- IRBM Science Park SpA, Biology Department, Rome, Italy.
| | - Anna Rita Taddei
- Center of Large Equipments, Section of Electron Microscopy, University of Tuscia, Viterbo, Italy.
| | - Anna Maria Fausto
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
| | - Giuseppe Scapigliati
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo, Italy.
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Buommino E, Carotenuto A, Antignano I, Bellavita R, Casciaro B, Loffredo MR, Merlino F, Novellino E, Mangoni ML, Nocera FP, Brancaccio D, Punzi P, Roversi D, Ingenito R, Bianchi E, Grieco P. The Outcomes of Decorated Prolines in the Discovery of Antimicrobial Peptides from Temporin-L. ChemMedChem 2019; 14:1283-1290. [PMID: 31087626 DOI: 10.1002/cmdc.201900221] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Revised: 05/12/2019] [Indexed: 01/17/2023]
Abstract
Previously, we identified a potent antimicrobial analogue of temporin L (TL), [Pro3 ]TL, in which glutamine at position 3 was substituted with proline. In this study, a series of analogues in which position 3 is substituted with non-natural proline derivatives, was investigated for correlations between the conformational properties of the compounds and their antibacterial, cytotoxic, and hemolytic activities. Non-natural proline analogues with substituents at position 4 of the pyrrolidine ring were considered. Structure-activity relationship (SAR) studies of these analogues were performed by means of antimicrobial and cytotoxicity assays along with circular dichroism (CD) and NMR spectroscopic analyses for selected compounds. The most promising peptides were additionally evaluated for their activity against some representative veterinary microbial strains to compare with those from human strains. We identified novel analogues with interesting properties that make them attractive lead compounds.
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Affiliation(s)
- Elisabetta Buommino
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Alfonso Carotenuto
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Ignazio Antignano
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Rosa Bellavita
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Bruno Casciaro
- Department of Biochemical Sciences, Laboratory affiliated to Pasteur Institute Italia-Fondazione Cenci Bolognetti, Sapienza University of Rome, Rome, 00185, Italy.,Center for Life Nano Science, Istituto Italiano di Tecnologia, Rome, 00161, Italy
| | - Maria Rosa Loffredo
- Department of Biochemical Sciences, Laboratory affiliated to Pasteur Institute Italia-Fondazione Cenci Bolognetti, Sapienza University of Rome, Rome, 00185, Italy
| | - Francesco Merlino
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Ettore Novellino
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Maria Luisa Mangoni
- Department of Biochemical Sciences, Laboratory affiliated to Pasteur Institute Italia-Fondazione Cenci Bolognetti, Sapienza University of Rome, Rome, 00185, Italy
| | - Francesca Paola Nocera
- Department of Veterinary Medicine and Animal Production, University of Naples "Federico II", Naples, 80137, Italy
| | - Diego Brancaccio
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy
| | - Pasqualina Punzi
- Peptide Chemistry Unit, IRBM S.p.A., via Pontina km 30 600, Pomezia, 00071, Italy
| | - Daniela Roversi
- Peptide Chemistry Unit, IRBM S.p.A., via Pontina km 30 600, Pomezia, 00071, Italy
| | - Raffaele Ingenito
- Peptide Chemistry Unit, IRBM S.p.A., via Pontina km 30 600, Pomezia, 00071, Italy
| | - Elisabetta Bianchi
- Peptide Chemistry Unit, IRBM S.p.A., via Pontina km 30 600, Pomezia, 00071, Italy
| | - Paolo Grieco
- Department of Pharmacy, University of Naples "Federico II", Naples, 80131, Italy.,Centro Interuniversitario di Ricerca sui Peptidi Bioattivi (CIRPEB), University of Naples "Federico II", Naples, 80134, Italy
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129
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Mant CT, Jiang Z, Gera L, Davis T, Hodges RS. Design of Novel Amphipathic α-Helical Antimicrobial Peptides with No Toxicity as Therapeutics against the Antibiotic-Resistant Gram-Negative Bacterial Pathogen, Acinetobacter Baumannii. JOURNAL OF MEDICINAL CHEMISTRY AND DRUG DESIGN 2019; 2:114. [PMID: 34377965 PMCID: PMC8351594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
We designed de novo and synthesized two series of five 26-residue amphipathic α-helical cationic antimicrobial peptides (AMPs) with five or six positively charged residues (D-Lys, L-Dab (2,4-diaminobutyric acid) or L-Dap (2,3-diaminopropionic acid)) on the polar face where all other residues are in the D-conformation. Hemolytic activity against human red blood cells was determined using the most stringent conditions for the hemolysis assay, 18h at 37°C, 1% human erythrocytes and peptide concentrations up to 1000 μg/mL (~380 μM). Antimicrobial activity was determined against 7 Acinetobacter baumannii strains, resistant to polymyxin B and colistin (antibiotics of last resort) to show the effect of positively charged residues in two different locations on the polar face (positions 3, 7, 11, 18, 22 and 26 versus positions 3, 7, 14, 15, 22 and 26). All 10 peptides had two D-Lys residues in the center of the non-polar face as "specificity determinants" at positions 13 and 16 which provide specificity for prokaryotic cells over eukaryotic cells. Specificity determinants also maintain excellent antimicrobial activity in the presence of human sera. This study shows that the location and type of positively charged residue (Dab and Dap) on the polar face are critical to obtain the best therapeutic indices.
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Affiliation(s)
- Colin T Mant
- Department of Biochemistry and Molecular Genetics, University of Colorado, School of Medicine, Anschutz Medical Campus, Aurora, Colorado, USA
- AMP Discovery LLC, Aurora, Colorado, USA
| | - Ziqing Jiang
- Department of Biochemistry and Molecular Genetics, University of Colorado, School of Medicine, Anschutz Medical Campus, Aurora, Colorado, USA
| | - Lajos Gera
- Department of Biochemistry and Molecular Genetics, University of Colorado, School of Medicine, Anschutz Medical Campus, Aurora, Colorado, USA
- AMP Discovery LLC, Aurora, Colorado, USA
| | - Tim Davis
- Department of Biochemistry and Molecular Genetics, University of Colorado, School of Medicine, Anschutz Medical Campus, Aurora, Colorado, USA
| | - Robert S Hodges
- Department of Biochemistry and Molecular Genetics, University of Colorado, School of Medicine, Anschutz Medical Campus, Aurora, Colorado, USA
- AMP Discovery LLC, Aurora, Colorado, USA
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130
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Húmpola MV, Rey MC, Spontón PG, Simonetta AC, Tonarelli GG. A Comparative Study of the Antimicrobial and Structural Properties of Short Peptides and Lipopeptides Containing a Repetitive Motif KLFK. Protein Pept Lett 2019; 26:192-203. [PMID: 30526450 DOI: 10.2174/0929866526666181208144629] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Revised: 11/16/2018] [Accepted: 12/04/2018] [Indexed: 11/22/2022]
Abstract
BACKGROUND In the last years, Antimicrobial Peptides (AMPs) and lipopeptides have received attention as promising candidates to treat infections caused by resistant microorganisms. OBJECTIVE The main objective of this study was to investigate the effect of repetitive KLFK motifs and the attachment of aliphatic acids to the N-terminus of (KLFK)n peptides on therapeutic properties. METHODS Minimal inhibitory concentration against Gram (+) and (-) bacteria and yeast of synthetic compounds were determined by broth microtiter dilution method, and the toxicity was evaluated by hemolysis assay. Membrane-peptide interaction studies were performed with model phospholipid membranes mimicking those of bacterial and mammalian cells by Fluorescence Spectroscopy. The secondary structure in solution and membranes was determined by Circular Dichroism. RESULTS Our results showed that the resulting compounds have inhibitory activity against bacteria and fungi. The (KLFK)3 peptide showed the highest therapeutic index against bacterial and yeast strains, and the (KLFK)2 peptide conjugated with octanoic acid was the most active against yeasts. All the lipopeptides containing long-chain fatty acids (C14 or longer) were highly hemolytic at low concentrations. The antimicrobial activity of (KLFK)2 and (KLFK)3 lipopeptides was mainly associated with improved stability of the amphipathic secondary structure, which showed high contributions of α-helix in dipalmitoylphosphatidylglycerol (DPPG) vesicles. CONCLUSION The repetition of the KLFK sequence and the conjugation with lipid tails allowed obtained compounds with high antimicrobial activity and low toxicity, becoming good candidates for treating infectious diseases.
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Affiliation(s)
- María Verónica Húmpola
- Departamento de Quimica Organica, Facultad de Bioquimica y Cs. Biologicas, Universidad Nacional del Litoral (U.N.L), Santa Fe, Argentina
| | - María Carolina Rey
- Departamento de Quimica Organica, Facultad de Bioquimica y Cs. Biologicas, Universidad Nacional del Litoral (U.N.L), Santa Fe, Argentina
| | - Pablo Gabriel Spontón
- Departamento de Quimica Organica, Facultad de Bioquimica y Cs. Biologicas, Universidad Nacional del Litoral (U.N.L), Santa Fe, Argentina.,Catedras de Microbiologia y Biotecnologia, Departamento de Ingenieria en Alimentos, Facultad de Ingenieria Quimica, Universidad Nacional del Litoral, Santa Fe, Argentina
| | - Arturo Carlos Simonetta
- Catedras de Microbiologia y Biotecnologia, Departamento de Ingenieria en Alimentos, Facultad de Ingenieria Quimica, Universidad Nacional del Litoral, Santa Fe, Argentina
| | - Georgina Guadalupe Tonarelli
- Departamento de Quimica Organica, Facultad de Bioquimica y Cs. Biologicas, Universidad Nacional del Litoral (U.N.L), Santa Fe, Argentina
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131
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Mant CT, Jiang Z, Gera L, Davis T, Nelson KL, Bevers S, Hodges RS. De Novo Designed Amphipathic α-Helical Antimicrobial Peptides Incorporating Dab and Dap Residues on the Polar Face To Treat the Gram-Negative Pathogen, Acinetobacter baumannii. J Med Chem 2019; 62:3354-3366. [PMID: 30848594 DOI: 10.1021/acs.jmedchem.8b01785] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
We have designed de novo and synthesized ten 26-residue D-conformation amphipathic α-helical cationic antimicrobial peptides (AMPs), seven with "specificity determinants", which provide specificity for prokaryotic cells over eukaryotic cells. The ten AMPs contain five or six positively charged residues (d-Arg, d-Lys, d-Orn, l-Dab, or l-Dap) on the polar face to understand their role in hemolytic activity against human red blood cells and antimicrobial activity against seven Acinetobacter baumannii strains, resistant to polymyxin B and colistin, and 20 A. baumannii worldwide isolates from 2016 and 2017 with antibiotic resistance to 18 different antibiotics. AMPs with specificity determinants and with l-Dab and l-Dap residues on the polar face have essentially no hemolytic activity at 1000 μg/mL (380 μM), showing for the first time the importance of these unusual amino acid residues in solving long-standing hemolysis issues of AMPs. Specificity determinants maintained excellent antimicrobial activity in the presence of human sera.
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Affiliation(s)
- Colin T Mant
- Department of Biochemistry and Molecular Genetics, School of Medicine , University of Colorado , Anschutz Medical Campus , Aurora , Colorado 80045 , United States
| | - Ziqing Jiang
- Department of Biochemistry and Molecular Genetics, School of Medicine , University of Colorado , Anschutz Medical Campus , Aurora , Colorado 80045 , United States
| | - Lajos Gera
- Department of Biochemistry and Molecular Genetics, School of Medicine , University of Colorado , Anschutz Medical Campus , Aurora , Colorado 80045 , United States
| | - Tim Davis
- Department of Biochemistry and Molecular Genetics, School of Medicine , University of Colorado , Anschutz Medical Campus , Aurora , Colorado 80045 , United States
| | | | - Shaun Bevers
- Department of Biochemistry and Molecular Genetics, School of Medicine , University of Colorado , Anschutz Medical Campus , Aurora , Colorado 80045 , United States
| | - Robert S Hodges
- Department of Biochemistry and Molecular Genetics, School of Medicine , University of Colorado , Anschutz Medical Campus , Aurora , Colorado 80045 , United States
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132
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Salesa B, Martí M, Frígols B, Serrano-Aroca Á. Carbon Nanofibers in Pure Form and in Calcium Alginate Composites Films: New Cost-Effective Antibacterial Biomaterials against the Life-Threatening Multidrug-Resistant Staphylococcus epidermidis. Polymers (Basel) 2019; 11:polym11030453. [PMID: 30960437 PMCID: PMC6473926 DOI: 10.3390/polym11030453] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2019] [Revised: 02/26/2019] [Accepted: 03/05/2019] [Indexed: 11/16/2022] Open
Abstract
Due to the current global health problem of antibiotic resistant recently announced by the World Health Organization, there is an urgent necessity of looking for new alternative antibacterial materials able to treat and impede multidrug-resistant infections which are cost-effective and non-toxic for human beings. In this regard, carbon nanofibers (CNFs) possess currently much lower cost than other carbon nanomaterials, such as graphene oxide, and exhibit excellent chemical, mechanical and electric properties. Furthermore, here, the first report on the antibacterial activity of CNFs was demonstrated. Thus, these nanomaterials, in pure form or incorporated in a minuscule amount into calcium alginate composite films to reduce production costs as much as possible, showed to be new weapons against a globally spreading multidrug-resistant pathogen, the methicillin-resistant Staphylococcus epidermidis (MRSE). This Gram-positive bacterium is becoming one of the most dangerous pathogens, due to its abundance on skin. In this study, these hollow filamentous materials, in direct contact with cells and loaded in the low-cost calcium alginate composite films, showed no cytotoxicity for human keratinocyte HaCaT cells, which render them very promising for biomedical applications. The CNFs used in this work were characterized by Raman spectroscopy and observed by high-resolution transmission electron with energy-disperse X-ray spectroscopy.
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Affiliation(s)
- Beatriz Salesa
- Facultad de Veterinaria y Ciencias Experimentales, Universidad Católica de Valencia San Vicente Mártir, c/Guillem de Castro 94, 46001 Valencia, Spain.
| | - Miguel Martí
- Facultad de Veterinaria y Ciencias Experimentales, Universidad Católica de Valencia San Vicente Mártir, c/Guillem de Castro 94, 46001 Valencia, Spain.
| | - Belén Frígols
- Facultad de Veterinaria y Ciencias Experimentales, Universidad Católica de Valencia San Vicente Mártir, c/Guillem de Castro 94, 46001 Valencia, Spain.
| | - Ángel Serrano-Aroca
- Facultad de Veterinaria y Ciencias Experimentales, Universidad Católica de Valencia San Vicente Mártir, c/Guillem de Castro 94, 46001 Valencia, Spain.
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133
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Kuppusamy R, Yasir M, Yee E, Willcox M, Black DS, Kumar N. Guanidine functionalized anthranilamides as effective antibacterials with biofilm disruption activity. Org Biomol Chem 2019; 16:5871-5888. [PMID: 30070287 DOI: 10.1039/c8ob01699b] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
We describe a library of amphiphilic anthranilamide compounds as antimicrobial peptide (AMP) mimics. These contain a hydrophobic naphthoyl side chain and different hydrophilic cationic groups such as amino, quaternary ammonium and guanidino groups. These are prepared via the ring-opening of different isatoic anhydrides. The antibacterial activity against S. aureus and E. coli of compounds containing guanidino cationic groups was greater than that for amino and quaternary ammonium cationic groups. The fluoro-substituted guanidinium compound 9b showed a minimum inhibitory concentration (MIC) of 2.0 μM against S. aureus, and reduced established biofilms of S. aureus by 92% at 64 μM concentration. The bromo-substituted guanidinium compound 9d exhibited good MIC against S. aureus (3.9 μM) and E. coli (15.6 μM) and disrupted established biofilms of S. aureus by 83% at 62.4 μM concentration. Cytoplasmic membrane permeability studies suggested that depolarization and disruption of the bacterial cell membrane could be a possible mechanism for antibacterial activity and the in vitro toxicity studies against MRC-5 human lung fibroblast cells showed that the potent compounds are non-toxic against mammalian cells.
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Affiliation(s)
- Rajesh Kuppusamy
- School of Chemistry, UNSW Australia, Sydney, NSW 2052, Australia.
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134
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Kumagai A, Dupuy FG, Arsov Z, Elhady Y, Moody D, Ernst RK, Deslouches B, Montelaro RC, Peter Di Y, Tristram-Nagle S. Elastic behavior of model membranes with antimicrobial peptides depends on lipid specificity and d-enantiomers. SOFT MATTER 2019; 15:1860-1868. [PMID: 30702120 PMCID: PMC7485610 DOI: 10.1039/c8sm02180e] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
In an effort to provide new treatments for the global crisis of bacterial resistance to current antibiotics, we have used a rational approach to design several new antimicrobial peptides (AMPs). The present study focuses on 24-mer WLBU2 and its derivative, D8, with the amino acid sequence, RRWVRRVRRWVRRVVRVVRRWVRR. In D8, all of the valines are the d-enantiomer. We use X-ray low- and wide-angle diffuse scattering data to measure elasticity and lipid chain order. We show a good correlation between in vitro bacterial killing efficiency and both bending and chain order behavior in bacterial lipid membrane mimics; our results suggest that AMP-triggered domain formation could be the mechanism of bacterial killing in both Gram-positive and Gram-negative bacteria. In red blood cell lipid mimics, D8 stiffens and orders the membrane, while WLBU2 softens and disorders it, which correlate with D8's harmless vs. WLBU2's toxic behavior in hemolysis tests. These results suggest that elasticity and chain order behavior can be used to predict mechanisms of bactericidal action and toxicity of new AMPs.
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Affiliation(s)
- Akari Kumagai
- Biological Physics Group, Physics Department, Carnegie Mellon University, Pittsburgh, PA, USA.
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135
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Evaluation of the Antimicrobial Activity of Cationic Peptides Loaded in Surface-Modified Nanoliposomes against Foodborne Bacteria. Int J Mol Sci 2019; 20:ijms20030680. [PMID: 30764495 PMCID: PMC6386929 DOI: 10.3390/ijms20030680] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Revised: 01/31/2019] [Accepted: 02/02/2019] [Indexed: 01/03/2023] Open
Abstract
Bacteria are a common group of foodborne pathogens presenting public health issues with a large economic burden for the food industry. Our work focused on a solution to this problem by evaluating antibiotic activity against two bacteria (Listeria monocytogenes and Escherichia coli) of relevance in the field of foodstuffs. We used two approaches: (i) structural modification of the antimicrobial peptides and (ii) nano-vehiculisation of the modified peptides into polymer-coated liposomes. To achieve this, two antimicrobial peptides, herein named ‘peptide +2′ and ‘peptide +5′ were synthesised using the solid phase method. The physicochemical characterisation of the peptides was carried out using measurements of surface tension and dynamic light scattering. Additionally, nanoliposomes were elaborated by the ethanol injection method and coated with a cationic polymer (Eudragit E-100) through the layer-by-layer process. Liposome characterisation, in terms of size, polydispersity and zeta potential, was undertaken using dynamic light scattering. The results show that the degree of hydrophilic modification in the peptide leads to different characteristics of amphipathicity and subsequently to different physicochemical behaviour. On the other hand, antibacterial activity against both bacteria was slightly altered after modifying peptide sequence. Nonetheless, after the encapsulation of the peptides into polymer-coated nano-liposomes, the antibacterial activity increased approximately 2000-fold against that of L. monocytogenes.
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136
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Neuhaus CS, Gabernet G, Steuer C, Root K, Hiss JA, Zenobi R, Schneider G. Simulated Molecular Evolution for Anticancer Peptide Design. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201811215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Claudia S. Neuhaus
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Gisela Gabernet
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Christian Steuer
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Katharina Root
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Jan A. Hiss
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Renato Zenobi
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Gisbert Schneider
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
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137
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Neuhaus CS, Gabernet G, Steuer C, Root K, Hiss JA, Zenobi R, Schneider G. Simulated Molecular Evolution for Anticancer Peptide Design. Angew Chem Int Ed Engl 2019; 58:1674-1678. [DOI: 10.1002/anie.201811215] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2018] [Revised: 11/01/2018] [Indexed: 02/01/2023]
Affiliation(s)
- Claudia S. Neuhaus
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Gisela Gabernet
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Christian Steuer
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Katharina Root
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Jan A. Hiss
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Renato Zenobi
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
| | - Gisbert Schneider
- Department of Chemistry and Applied BiosciencesSwiss Federal Institute of Technology (ETH) Vladimir-Prelog-Weg 4 8093 Zurich Switzerland
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138
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Irazazabal LN, Porto WF, Fensterseifer IC, Alves ES, Matos CO, Menezes AC, Felício MR, Gonçalves S, Santos NC, Ribeiro SM, Humblot V, Lião LM, Ladram A, Franco OL. Fast and potent bactericidal membrane lytic activity of PaDBS1R1, a novel cationic antimicrobial peptide. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2019; 1861:178-190. [DOI: 10.1016/j.bbamem.2018.08.001] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Revised: 07/30/2018] [Accepted: 08/07/2018] [Indexed: 12/20/2022]
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139
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Selectivity of Antimicrobial Peptides: A Complex Interplay of Multiple Equilibria. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2019; 1117:175-214. [DOI: 10.1007/978-981-13-3588-4_11] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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140
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Antimicrobial and anti-inflammatory activities of chemokine CXCL14-derived antimicrobial peptide and its analogs. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2019; 1861:256-267. [DOI: 10.1016/j.bbamem.2018.06.016] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2018] [Revised: 06/21/2018] [Accepted: 06/25/2018] [Indexed: 12/28/2022]
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141
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Datta LP, Dutta D, Chakraborty A, Das TK. Tyrosine based cationic acrylates as potent antimicrobial agents against shigellosis. Biomater Sci 2019; 7:2611-2622. [DOI: 10.1039/c8bm01588k] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Design of tyrosine-based cationic polymers with antimicrobial activities.
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Affiliation(s)
- Lakshmi Priya Datta
- Department of Biochemistry and Biophysics
- University of Kalyani
- Kalyani-741235
- India
| | - Debanjan Dutta
- Department of Biochemistry and Biophysics
- University of Kalyani
- Kalyani-741235
- India
| | - Arpita Chakraborty
- Department of Biochemistry and Biophysics
- University of Kalyani
- Kalyani-741235
- India
| | - Tapan Kumar Das
- Department of Biochemistry and Biophysics
- University of Kalyani
- Kalyani-741235
- India
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142
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Martí M, Frígols B, Salesa B, Serrano-Aroca Á. Calcium alginate/graphene oxide films: Reinforced composites able to prevent Staphylococcus aureus and methicillin-resistant Staphylococcus epidermidis infections with no cytotoxicity for human keratinocyte HaCaT cells. Eur Polym J 2019. [DOI: 10.1016/j.eurpolymj.2018.11.012] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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143
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Shahrour H, Ferrer-Espada R, Dandache I, Bárcena-Varela S, Sánchez-Gómez S, Chokr A, Martinez-de-Tejada G. AMPs as Anti-biofilm Agents for Human Therapy and Prophylaxis. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2019; 1117:257-279. [PMID: 30980362 DOI: 10.1007/978-981-13-3588-4_14] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Microbial cells show a strong natural tendency to adhere to surfaces and to colonize them by forming complex communities called biofilms. In this growth mode, biofilm-forming cells encase themselves inside a dense matrix which efficiently protects them against antimicrobial agents and effectors of the immune system. Moreover, at the physiological level, biofilms contain a very heterogeneous cell population including metabolically inactive organisms and persisters, which are highly tolerant to antibiotics. The majority of human infectious diseases are caused by biofilm-forming microorganisms which are responsible for pathologies such as cystic fibrosis, infective endocarditis, pneumonia, wound infections, dental caries, infections of indwelling devices, etc. AMPs are well suited to combat biofilms because of their potent bactericidal activity of broad spectrum (including resting cells and persisters) and their ability to first penetrate and then to disorganize these structures. In addition, AMPs frequently synergize with antimicrobial compounds and were recently reported to repress the molecular pathways leading to biofilm formation. Finally, there is a very active research to develop AMP-containing coatings that can prevent biofilm formation by killing microbial cells on contact or by locally releasing their active principle. In this chapter we will describe these strategies and discuss the perspectives of the use of AMPs as anti-biofilm agents for human therapy and prophylaxis.
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Affiliation(s)
- Hawraa Shahrour
- Department of Microbiology and Parasitology, University of Navarra, Pamplona, Spain.,Laboratory of Microbiology, Department of Life & Earth Sciences, Faculty of Sciences I, Lebanese University, Hadat campus, Beirut, Lebanon.,Platform of Research and Analysis in Environmental Sciences (PRASE), Doctoral School of Sciences and Technologies, Lebanese University, Hadat Campus, Beirut, Lebanon
| | - Raquel Ferrer-Espada
- Department of Microbiology and Parasitology, University of Navarra, Pamplona, Spain.,Wellman Center for Photomedicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA
| | - Israa Dandache
- Laboratory of Microbiology, Department of Life & Earth Sciences, Faculty of Sciences I, Lebanese University, Hadat campus, Beirut, Lebanon.,Platform of Research and Analysis in Environmental Sciences (PRASE), Doctoral School of Sciences and Technologies, Lebanese University, Hadat Campus, Beirut, Lebanon
| | | | | | - Ali Chokr
- Laboratory of Microbiology, Department of Life & Earth Sciences, Faculty of Sciences I, Lebanese University, Hadat campus, Beirut, Lebanon.,Platform of Research and Analysis in Environmental Sciences (PRASE), Doctoral School of Sciences and Technologies, Lebanese University, Hadat Campus, Beirut, Lebanon
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144
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Eliseev IE, Terterov IN, Yudenko AN, Shamova OV. Linking sequence patterns and functionality of alpha-helical antimicrobial peptides. Bioinformatics 2018; 35:2713-2717. [DOI: 10.1093/bioinformatics/bty1048] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2018] [Revised: 11/08/2018] [Accepted: 12/24/2018] [Indexed: 12/15/2022] Open
Abstract
Abstract
Motivation
The rational design of antimicrobial peptides (AMPs) with increased therapeutic potential requires deep understanding of the determinants of their activities. Inspired by the computational linguistic approach, we hypothesized that sequence patterns may encode the functional features of AMPs.
Results
We found that α-helical and β-sheet peptides have non-intersecting pattern sets and therefore constructed new sequence templates using only helical patterns. Designed peptides adopted an α-helical conformation upon binding to lipids, confirming that the method captures structural and biophysical properties. In the antimicrobial assay, 5 of 7 designed peptides exhibited activity against Gram(+) and Gram(–) bacteria, with most potent candidate comparable to best natural peptides. We thus conclude that sequence patterns comprise the structural and functional features of α-helical AMPs and guide their efficient design.
Supplementary information
Supplementary data are available at Bioinformatics online.
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Affiliation(s)
- Igor E Eliseev
- Nanobiotechnology Lab, St Petersburg Academic University, St Petersburg, Russian Federation
| | - Ivan N Terterov
- Nanobiotechnology Lab, St Petersburg Academic University, St Petersburg, Russian Federation
| | - Anna N Yudenko
- Nanobiotechnology Lab, St Petersburg Academic University, St Petersburg, Russian Federation
| | - Olga V Shamova
- Department of General Pathology and Pathophysiology, Institute of Experimental Medicine, St Petersburg, Russian Federation
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145
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Boone K, Camarda K, Spencer P, Tamerler C. Antimicrobial peptide similarity and classification through rough set theory using physicochemical boundaries. BMC Bioinformatics 2018; 19:469. [PMID: 30522443 PMCID: PMC6282327 DOI: 10.1186/s12859-018-2514-6] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2018] [Accepted: 11/20/2018] [Indexed: 01/09/2023] Open
Abstract
Background Antimicrobial peptides attract considerable interest as novel agents to combat infections. Their long-time potency across bacteria, viruses and fungi as part of diverse innate immune systems offers a solution to overcome the rising concerns from antibiotic resistance. With the rapid increase of antimicrobial peptides reported in the databases, peptide selection becomes a challenge. We propose similarity analyses to describe key properties that distinguish between active and non-active peptide sequences building upon the physicochemical properties of antimicrobial peptides. We used an iterative supervised machine learning approach to classify active peptides from inactive peptides with low false discovery rates in a relatively short computational search time. Results By generating explicit boundaries, our method defines new categories of active and inactive peptides based on their physicochemical properties. Consequently, it describes physicochemical characteristics of similarity among active peptides and the physicochemical boundaries between active and inactive peptides in a single process. To build the similarity boundaries, we used the rough set theory approach; to our knowledge, this is the first time that this approach has been used to classify peptides. The modified rough set theory method limits the number of values describing a boundary to a user-defined limit. Our method is optimized for specificity over selectivity. Noting that false positives increase activity assays while false negatives only increase computational search time, our method provided a low false discovery rate. Published datasets were used to compare our rough set theory method to other published classification methods and based on this comparison, we achieved high selectivity and comparable sensitivity to currently available methods. Conclusions We developed rule sets that define physicochemical boundaries which allow us to directly classify the active sequences from inactive peptides. Existing classification methods are either sequence-order insensitive or length-dependent, whereas our method generates the rule sets that combine order-sensitive descriptors with length-independent descriptors. The method provides comparable or improved performance to currently available methods. Discovering the boundaries of physicochemical properties may lead to a new understanding of peptide similarity. Electronic supplementary material The online version of this article (10.1186/s12859-018-2514-6) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Kyle Boone
- Bioengineering Program, Institute of Bioengineering Research, University of Kansas, Learned Hall, Room 5109, 1530 W 15th Street, Lawrence, KS, 66045, USA
| | - Kyle Camarda
- Chemical and Petroleum Engineering Department, University of Kansas, Learned Hall, Room 4154, 1530 West 15th Street, Lawrence, KS, 66045, USA
| | - Paulette Spencer
- Mechanical Engineering Department, Bioengineering Program, Institute of Bioengineering Research, University of Kansas, Learned Hall, Room 3111, 1530 West 15th Street, Lawrence, KS, 66045, USA
| | - Candan Tamerler
- Mechanical Engineering Department, Bioengineering Program, Institute of Bioengineering Research, University of Kansas, Learned Hall, Room 3135A, 1530 W 15th St, Lawrence, KS, 66045, USA.
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146
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Mohammadi M, Taheri B, Momenzadeh N, Salarinia R, Nabipour I, Farshadzadeh Z, Bargahi A. Identification and Characterization of Novel Antimicrobial Peptide from Hippocampus comes by In Silico and Experimental Studies. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2018; 20:718-728. [PMID: 30039186 DOI: 10.1007/s10126-018-9843-3] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2018] [Accepted: 06/29/2018] [Indexed: 05/28/2023]
Abstract
Antimicrobial peptides (AMPs) have attracted attentions as a novel antimicrobial agent because of their unique activity against microbes. In the present study, we described a new, previously unreported AMP, moronecidin-like peptide, from Hippocampus comes and compared its antimicrobial activity with moronecidin from hybrid striped bass. Antibacterial assay indicated that gram-positive bacteria were more sensitive to moronecidin and moronecidin-like compared with gram-negative bacteria. Furthermore, both AMPs were found to exhibit effective antifungal activity. Comparative analysis of the antimicrobial activity revealed that moronecidin-like peptide has higher activity against Acinetobacter baumannii and Staphylococcus epidermidis relative to moronecidin. Both moronecidin-like and moronecidin peptides retained their antibacterial activity in physiological pH and salt concentration. The time-killing assay showed that the AMPs completely killed A. baumannii and S. epidermidis isolates after 1 and 5 h at five- and tenfold above their corresponding MICs, respectively. Anti-biofilm assay demonstrated that peptides were able to inhibit 50% of biofilm formation at sub-MIC of 1/8 MIC. Furthermore, moronecidin-like significantly inhibited biofilm formation more than moronecidin at 1/16 MIC. Collectively, our results revealed that antimicrobial and anti-biofilm activities of moronecidin-like are comparable to moronecidin. In addition, the hemolytic and cytotoxic activities of moronecidin-like were lower than those of moronecidin, suggesting it as a potential novel therapeutic agent, and a template to design new therapeutic AMPs.
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Affiliation(s)
- Mohsen Mohammadi
- The Persian Gulf Marine Biotechnology Research Center, The Persian Gulf Biomedical Sciences Research Institute, Bushehr University of Medical Sciences, Moallem Street, Bushehr, 7514633196, Iran.
| | - Behrouz Taheri
- Department of Medical Laboratory Sciences, School of Paramedicine, Ahvaz Jundishapur University of Medical Sciences, Ahvaz, Iran
| | - Niloofar Momenzadeh
- The Persian Gulf Marine Biotechnology Research Center, The Persian Gulf Biomedical Sciences Research Institute, Bushehr University of Medical Sciences, Moallem Street, Bushehr, 7514633196, Iran
| | - Reza Salarinia
- Department of Medical Biotechnology and Molecular Sciences, School of Medicine, North Khorasan University of Medical Sciences, Bojnurd, Iran
| | - Iraj Nabipour
- The Persian Gulf Marine Biotechnology Research Center, The Persian Gulf Biomedical Sciences Research Institute, Bushehr University of Medical Sciences, Moallem Street, Bushehr, 7514633196, Iran
| | - Zahra Farshadzadeh
- Department of Microbiology, School of Medicine, Ahvaz Jundishapur University of Medical Sciences, Ahvaz, Iran
- Infectious and Tropical Diseases Research Center, Health Research Institute, Ahvaz Jundishapur University of Medical Sciences, Ahvaz, Iran
| | - Afshar Bargahi
- The Persian Gulf Marine Biotechnology Research Center, The Persian Gulf Biomedical Sciences Research Institute, Bushehr University of Medical Sciences, Moallem Street, Bushehr, 7514633196, Iran
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Peeler DJ, Thai SN, Cheng Y, Horner PJ, Sellers DL, Pun SH. pH-sensitive polymer micelles provide selective and potentiated lytic capacity to venom peptides for effective intracellular delivery. Biomaterials 2018; 192:235-244. [PMID: 30458359 DOI: 10.1016/j.biomaterials.2018.11.004] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Revised: 10/31/2018] [Accepted: 11/03/2018] [Indexed: 01/12/2023]
Abstract
Endocytosed biomacromolecule delivery systems must escape the endosomal trafficking pathway in order for their cargo to exert effects in other cellular compartments. Although endosomal release is well-recognized as one of the greatest barriers to efficacy of biologic drugs with intracellular targets, most drug carriers have relied on cationic materials that passively induce endosomal swelling and membrane rupture with low efficiency. To address the endosome release challenge, our lab has developed a diblock copolymer system for nucleic acid delivery that selectively displays a potent membrane-lytic peptide (melittin) in response to the pH drop during the endosomal maturation. To further optimize this system, we evaluated a panel of peptides with reported lytic activity in comparison to melittin. Nineteen different lytic peptides were synthesized and their membrane-lytic properties at both neutral and acidic pH characterized using a red blood cell hemolysis assay. The top five performing peptides were then conjugated to our pH-sensitive diblock copolymer via disulfide linkers and used to deliver a variety of nucleic acids to cultured mammalian cells as well as in vivo to the mouse brain. We demonstrate that the sharp pH-transition of VIPER compensates for potential advantages from pH-sensitive peptides, such that polymer-peptide conjugates with poorly selective but highly lytic peptides achieve safe and effective transfection both in vitro and in vivo. In addition, peptides that require release from polymer backbones for lysis were less effective in the VIPER system, likely due to limited endosomal reducing power of target cells. Finally, we show that certain peptides are potentiated in lytic ability by polymer conjugation and that these peptide-polymer constructs are most effective in vivo.
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Affiliation(s)
- David J Peeler
- Department of Bioengineering and Molecular Engineering and Sciences Institute, University of Washington, Seattle, WA, 98195, United States
| | - Salina N Thai
- Department of Bioengineering and Molecular Engineering and Sciences Institute, University of Washington, Seattle, WA, 98195, United States
| | - Yilong Cheng
- Department of Bioengineering and Molecular Engineering and Sciences Institute, University of Washington, Seattle, WA, 98195, United States
| | - Philip J Horner
- Center for Neuroregeneration and Department of Neurosurgery, Houston Methodist Research Institute, Houston, TX, United States
| | - Drew L Sellers
- Department of Bioengineering and Molecular Engineering and Sciences Institute, University of Washington, Seattle, WA, 98195, United States.
| | - Suzie H Pun
- Department of Bioengineering and Molecular Engineering and Sciences Institute, University of Washington, Seattle, WA, 98195, United States.
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148
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Mant CT, Byars A, Ankarlo S, Jiang Z, Hodges RS. Separation of highly charged (+5 to +10) amphipathic α-helical peptide standards by cation-exchange and reversed-phase high-performance liquid chromatography. J Chromatogr A 2018; 1574:60-70. [DOI: 10.1016/j.chroma.2018.09.003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2018] [Revised: 08/29/2018] [Accepted: 09/01/2018] [Indexed: 11/28/2022]
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149
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Identification of novel antimicrobial peptide from Asian sea bass (Lates calcarifer) by in silico and activity characterization. PLoS One 2018; 13:e0206578. [PMID: 30365554 PMCID: PMC6203393 DOI: 10.1371/journal.pone.0206578] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2017] [Accepted: 10/16/2018] [Indexed: 11/29/2022] Open
Abstract
Background The global crisis of antibiotic resistance increases the demand for the new promising alternative drugs such as antimicrobial peptides (AMPs). Accordingly, we have described a new, previously unrecognized effective AMP, named dicentracin-like, from Asian sea bass and characterized its antimicrobial activity by comparison with moronecidin. Methodology/ Results Gene expression analysis demonstrated the expression of dicentracin-like peptide in tissues of the immune system such as the skin and the head kidney, which is an important endocrine and lymphoid organ. Moronecidin and dicentracin-like exhibited a higher antibacterial activity against gram-positive bacteria relative to gram-negative ones, while both peptides showed a greater binding ability to gram-negative bacteria compared to gram-positive ones. This contradiction between antibacterial activity and binding affinity may be related to the outer membrane from gram-negative bacteria. Compared with moronecidin, dicentracin-like peptide showed more potent binding ability to all gram-positive and gram-negative bacteria. In addition, dicentracin-like peptide exhibited a high antibacterial activity against the investigated microorganisms, except against Staphylococcus aureus. A direct relationship was found between the binding affinity/cationicity and the antibiofilm activity of the peptides wherein, an elevation in pH corresponded to a decrease in their antibiofilm property. Time-kill kinetics analysis against clinical Acinetobacter baumannii isolate indicated that bactericidal effect of dicentracin-like and moronecidin at inhibitory concentration (1XMIC) was observed after 4 and 6 hours, respectively, while bactericidal effect of both AMPs at concentration of 2XMIC was observed after 2 hours. Dicentracin-like peptide showed higher inhibitory activity at subinhibitory concentration (1/2XMIC), relative to moronecidin. Compared with moronecidin, dicentracin-like peptide possessed greater binding affinity to bacteria at high salt concentration, as well as at alkaline pH; In addition, dicentracin-like exhibited a higher antibiofilm activity in comparison to moronecidin even at alkaline pH. Hemolytic analysis against human RBC revealed that hemolytic activity of moronecidin was more potent than that of dicentracin-like, which is consistent with its greater non-polar face hydrophobicity. Conclusions In the present study, In Silico comparative sequence analysis and antimicrobial characterization led to identify a new, previously unrecognized antimicrobial function for named dicentracin-like peptide by comparison with moronecidin, representing a possible template for designing new effective AMPs and improving known ones.
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Amirkhanov NV, Tikunova NV, Pyshnyi DV. Synthetic Antimicrobial Peptides: I. Antimicrobial Activity of Amphiphilic and Nonamphiphilic Cationic Peptides. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2018. [DOI: 10.1134/s1068162018050035] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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