1
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Zamora-Mendoza L, Vispo SN, De Lima L, Mora JR, Machado A, Alexis F. Hydrogel for the Controlled Delivery of Bioactive Components from Extracts of Eupatorium glutinosum Lam. Leaves. Molecules 2023; 28:molecules28041591. [PMID: 36838578 PMCID: PMC9960609 DOI: 10.3390/molecules28041591] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2022] [Revised: 01/29/2023] [Accepted: 01/30/2023] [Indexed: 02/11/2023] Open
Abstract
This research reported a hydrogel loaded with the ethanolic and methanolic extracts of Eupatorium glutinosum Lam. The E. glutinosum extracts were characterized by phytochemical screening, Fourier-transform infrared spectroscopy (FTIR), thin-layer chromatography (TLC), and UV/Vis profile identification. This research also evaluated the pharmacological activity of the extracts using antimicrobial, antioxidant, and anti-inflammatory assays prior to polymeric encapsulation. Results indicate that extracts inhibit the Escherichia colii DH5-α (Gram negative) growth; excellent antioxidant activity was evaluated by the ferric reducing power and total antioxidant activity assays, and extracts showed an anti-hemolytic effect. Moreover, the cotton and microcrystalline cellulose hydrogels demonstrate successful encapsulation based on characterization and kinetics studies such as FTIR, extract release, and swelling degree. Moreover, effective antibacterial activity was registered by the loaded hydrogel. The overall results encourage and show that Eupatorium glutinosum-loaded hydrogel may find a wide range of bandage and wound healing applications in the biomedical area.
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Affiliation(s)
- Lizbeth Zamora-Mendoza
- School of Biological Sciences & Engineering, Yachay Tech University, Urcuquí 100119, Ecuador
| | - Santiago Nelson Vispo
- School of Biological Sciences & Engineering, Yachay Tech University, Urcuquí 100119, Ecuador
- Correspondence: (S.N.V.); (F.A.)
| | - Lola De Lima
- School of Chemical Sciences and Engineering, Yachay Tech University, Urcuquí 100119, Ecuador
| | - José R. Mora
- Departamento de Ingeniería Química, Colegio de Ciencias e Ingenierías, Universidad San Francisco de Quito (USFQ), Quito 170901, Ecuador
| | - António Machado
- Laboratorio de Bacteriología, Instituto de Microbiología, Colegio de Ciencias Biológicas y Ambientales (COCIBA), Universidad San Francisco de Quito (USFQ), Quito 170901, Ecuador
| | - Frank Alexis
- Departamento de Ingeniería Química, Colegio de Ciencias e Ingenierías, Universidad San Francisco de Quito (USFQ), Quito 170901, Ecuador
- Correspondence: (S.N.V.); (F.A.)
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2
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Takahashi H, Sovadinova I, Yasuhara K, Vemparala S, Caputo GA, Kuroda K. Biomimetic antimicrobial polymers—Design, characterization, antimicrobial, and novel applications. WIRES NANOMEDICINE AND NANOBIOTECHNOLOGY 2022; 15:e1866. [PMID: 36300561 DOI: 10.1002/wnan.1866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2022] [Revised: 09/15/2022] [Accepted: 09/27/2022] [Indexed: 11/05/2022]
Abstract
Biomimetic antimicrobial polymers have been an area of great interest as the need for novel antimicrobial compounds grows due to the development of resistance. These polymers were designed and developed to mimic naturally occurring antimicrobial peptides in both physicochemical composition and mechanism of action. These antimicrobial peptide mimetic polymers have been extensively investigated using chemical, biophysical, microbiological, and computational approaches to gain a deeper understanding of the molecular interactions that drive function. These studies have helped inform SARs, mechanism of action, and general physicochemical factors that influence the activity and properties of antimicrobial polymers. However, there are still lingering questions in this field regarding 3D structural patterning, bioavailability, and applicability to alternative targets. In this review, we present a perspective on the development and characterization of several antimicrobial polymers and discuss novel applications of these molecules emerging in the field. This article is categorized under: Therapeutic Approaches and Drug Discovery > Emerging Technologies Therapeutic Approaches and Drug Discovery > Nanomedicine for Infectious Disease.
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Affiliation(s)
- Haruko Takahashi
- Graduate School of Integrated Sciences for Life Hiroshima University Higashi‐Hiroshima Hiroshima Japan
| | - Iva Sovadinova
- RECETOX, Faculty of Science Masaryk University Brno Czech Republic
| | - Kazuma Yasuhara
- Division of Materials Science, Graduate School of Science and Technology Nara Institute of Science and Technology Nara Japan
- Center for Digital Green‐Innovation Nara Institute of Science and Technology Nara Japan
| | - Satyavani Vemparala
- The Institute of Mathematical Sciences CIT Campus Chennai India
- Homi Bhabha National Institute Training School Complex Mumbai India
| | - Gregory A. Caputo
- Department of Chemistry & Biochemistry Rowan University Glassboro New Jersey USA
| | - Kenichi Kuroda
- Department of Biologic and Materials Sciences & Prosthodontics, School of Dentistry University of Michigan Ann Arbor Michigan USA
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3
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Xian W, Hennefarth MR, Lee MW, Do T, Lee EY, Alexandrova AN, Wong GCL. Histidine-Mediated Ion Specific Effects Enable Salt Tolerance of a Pore-Forming Marine Antimicrobial Peptide. Angew Chem Int Ed Engl 2022; 61:e202108501. [PMID: 35352449 DOI: 10.1002/anie.202108501] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Indexed: 12/19/2022]
Abstract
Antimicrobial peptides (AMPs) preferentially permeate prokaryotic membranes via electrostatic binding and membrane remodeling. Such action is drastically suppressed by high salt due to increased electrostatic screening, thus it is puzzling how marine AMPs can possibly work. We examine as a model system, piscidin-1, a histidine-rich marine AMP, and show that ion-histidine interactions play unanticipated roles in membrane remodeling at high salt: Histidines can simultaneously hydrogen-bond to a phosphate and coordinate with an alkali metal ion to neutralize phosphate charge, thereby facilitating multidentate bonds to lipid headgroups in order to generate saddle-splay curvature, a prerequisite to pore formation. A comparison among Na+ , K+ , and Cs+ indicates that histidine-mediated salt tolerance is ion specific. We conclude that histidine plays a unique role in enabling protein/peptide-membrane interactions that occur in marine or other high-salt environment.
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Affiliation(s)
- Wujing Xian
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Matthew R Hennefarth
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Michelle W Lee
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Tran Do
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Ernest Y Lee
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Anastassia N Alexandrova
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA.,California Nano Systems Institute, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Gerard C L Wong
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095, USA.,California Nano Systems Institute, University of California, Los Angeles, Los Angeles, CA 90095, USA
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4
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Xian W, Hennefarth MR, Lee MW, Do T, Lee EY, Alexandrova AN, Wong GCL. Histidine‐Mediated Ion Specific Effects Enable Salt Tolerance of a Pore‐Forming Marine Antimicrobial Peptide. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202108501] [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)
- Wujing Xian
- Department of Bioengineering University of California, Los Angeles Los Angeles CA 90095 USA
| | - Matthew R. Hennefarth
- Department of Chemistry and Biochemistry University of California, Los Angeles Los Angeles CA 90095 USA
| | - Michelle W. Lee
- Department of Bioengineering University of California, Los Angeles Los Angeles CA 90095 USA
| | - Tran Do
- Department of Bioengineering University of California, Los Angeles Los Angeles CA 90095 USA
| | - Ernest Y. Lee
- Department of Bioengineering University of California, Los Angeles Los Angeles CA 90095 USA
| | - Anastassia N. Alexandrova
- Department of Chemistry and Biochemistry University of California, Los Angeles Los Angeles CA 90095 USA
- California Nano Systems Institute University of California, Los Angeles Los Angeles CA 90095 USA
| | - Gerard C. L. Wong
- Department of Bioengineering University of California, Los Angeles Los Angeles CA 90095 USA
- California Nano Systems Institute University of California, Los Angeles Los Angeles CA 90095 USA
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5
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Tyagi A, Mishra A. Optimal Balance of Hydrophobic Content and Degree of Polymerization Results in a Potent Membrane-Targeting Antibacterial Polymer. ACS OMEGA 2021; 6:34724-34735. [PMID: 34963955 PMCID: PMC8697380 DOI: 10.1021/acsomega.1c05148] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 12/01/2021] [Indexed: 05/09/2023]
Abstract
Globally, excessive use of antibiotics has drastically raised the resistance frequency of disease-causing microorganisms among humans, leading to a scarcity of efficient and biocompatible drugs. Antimicrobial polymers have emerged as a promising candidate to combat drug-resistance pathogens. Along with the amphiphilic balance, structural conformation and molecular weight (M n) play an indispensable role in the antimicrobial potency and cytotoxic activity of polymers. Here, we synthesize cationic and amphiphilic methacrylamide random copolymers using free-radical copolymerization. The mole fraction of the hydrophobic groups is kept constant at approximately 20%, while the molecular weight (average number of linked polymeric units) is varied and the antibacterial and cytotoxic activities are studied. The chemical composition of the copolymers is characterized by 1H NMR spectroscopy. We observe that the average number of linked units in a polymer chain (i.e., molecular weight) significantly affects the polymer activity and selectivity. The antibacterial efficacy against both of the examined bacteria, Escherichia coli and Staphylococcus aureus, increases with increasing molecular weight. The bactericidal activity of polymers is confirmed by live/dead cell viability assay. Polymers with high molecular weight display high antibacterial activity, yet are highly cytotoxic even at 1 × MIC. However, low-molecular-weight polymers are biocompatible while retaining antibacterial potency. Furthermore, no resistance acquisition is observed against the polymers in E. coli and S. aureus. A comprehensive analysis using confocal and scanning electron microscopy (SEM) techniques shows that the polymers target bacterial membranes, resulting in membrane permeabilization that leads to cell death.
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Affiliation(s)
- Anju Tyagi
- Department
of Chemistry, Indian Institute of Technology
Gandhinagar, Palaj, Gandhinagar, Gujarat 382355, India
| | - Abhijit Mishra
- Department
of Materials Engineering, Indian Institute
of Technology Gandhinagar, Palaj, Gandhinagar, Gujarat 382355, India
- . Tel: (+91-79) 2395 2422
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6
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Influence of lipid bilayer composition on the activity of antimicrobial quaternary ammonium ionenes, the interplay of intrinsic lipid curvature and polymer hydrophobicity, the role of cardiolipin. Colloids Surf B Biointerfaces 2021; 207:112016. [PMID: 34364250 DOI: 10.1016/j.colsurfb.2021.112016] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2021] [Revised: 07/20/2021] [Accepted: 07/26/2021] [Indexed: 01/03/2023]
Abstract
Incorporation of hydrophobic component into amphiphilic polycations structure is frequently accompanied by an increase of antimicrobial activity. There is, however, a group of relatively hydrophilic polycations containing quaternary ammonium moieties along mainchain, ionenes, which also display strong antimicrobial and limited hemolytic properties. In this work, an influence of a hydrophobic side group length on antimicrobial mechanism of action is investigated in a series of novel amphiphilic ionenes. High antimicrobial activity was found by determination of minimum inhibitory concentration (MIC) and minimum bactericidal, and fungicidal concentration (MBC and MFC) in both growth media and a buffer. Biocompatibility was estimated by hemolytic and mammalian cells viability assays. Mechanistic studies were performed using large unilamellar vesicles (LUVs) with different lipid composition, as simplified models of cell membranes. The investigated ionenes are potent and selective antimicrobial molecules displaying a decrease of antimicrobial activity correlated with increase of hydrophobicity. Studies using LUVs revealed that the cardiolipin is an essential component responsible for the lipid bilayer permeabilization by investigated ionens. In contrast to relatively hydrophilic ionenes, more hydrophobic polymers showed an ability to stabilize membranes composed of lipids with negative spontaneous curvature in a certain range of polymer to lipid ratio. The results substantially contribute to the understanding of antimicrobial activity of the investigated class of polymers.
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7
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Bai S, Wang J, Yang K, Zhou C, Xu Y, Song J, Gu Y, Chen Z, Wang M, Shoen C, Andrade B, Cynamon M, Zhou K, Wang H, Cai Q, Oldfield E, Zimmerman SC, Bai Y, Feng X. A polymeric approach toward resistance-resistant antimicrobial agent with dual-selective mechanisms of action. SCIENCE ADVANCES 2021; 7:eabc9917. [PMID: 33571116 PMCID: PMC7840121 DOI: 10.1126/sciadv.abc9917] [Citation(s) in RCA: 45] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2020] [Accepted: 12/08/2020] [Indexed: 05/19/2023]
Abstract
Antibiotic resistance is now a major threat to human health, and one approach to combating this threat is to develop resistance-resistant antibiotics. Synthetic antimicrobial polymers are generally resistance resistant, having good activity with low resistance rates but usually with low therapeutic indices. Here, we report our solution to this problem by introducing dual-selective mechanisms of action to a short amidine-rich polymer, which can simultaneously disrupt bacterial membranes and bind to bacterial DNA. The oligoamidine shows unobservable resistance generation but high therapeutic indices against many bacterial types, such as ESKAPE strains and clinical isolates resistant to multiple drugs, including colistin. The oligomer exhibited excellent effectiveness in various model systems, killing extracellular or intracellular bacteria in the presence of mammalian cells, removing all bacteria from Caenorhabditis elegans, and rescuing mice with severe infections. This "dual mechanisms of action" approach may be a general strategy for future development of antimicrobial polymers.
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Affiliation(s)
- Silei Bai
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Jianxue Wang
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Kailing Yang
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Biology, Hunan University, Changsha, Hunan 410082, China
| | - Cailing Zhou
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Biology, Hunan University, Changsha, Hunan 410082, China
| | - Yangfan Xu
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Biology, Hunan University, Changsha, Hunan 410082, China
| | - Junfeng Song
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Yuanxin Gu
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Zheng Chen
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Min Wang
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Carolyn Shoen
- Veterans Affairs Medical Center, Syracuse, NY 13210, USA
| | - Brenda Andrade
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | | | - Kai Zhou
- Shenzhen Institute of Respiratory Diseases, The First Affiliated Hospital of Southern University of Science and Technology (Shenzhen People's Hospital), Shenzhen, Guangdong 518035, China
- The Second Clinical Medical College of Jinan University (Shenzhen People's Hospital), Shenzhen, Guangdong 518020, China
| | - Hui Wang
- Department of Clinical Laboratories, Peking University People's Hospital, Beijing, 100044, China
| | - Qingyun Cai
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Eric Oldfield
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Steven C Zimmerman
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Yugang Bai
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China.
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
| | - Xinxin Feng
- Institute of Chemical Biology and Nanomedicine, Hunan University, Changsha, Hunan 410082, China.
- State Key Laboratory of Chem/Biosensing and Chemometrics, Hunan Provincial Key Laboratory of Biomacromolecular Chemical Biology, Hunan University, Changsha, Hunan 410082, China
- School of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, China
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8
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Qian Y, Deng S, Lu Z, She Y, Xie J, Cong Z, Zhang W, Liu R. Using In Vivo Assessment on Host Defense Peptide Mimicking Polymer-Modified Surfaces for Combating Implant Infections. ACS APPLIED BIO MATERIALS 2020; 4:3811-3829. [DOI: 10.1021/acsabm.0c01066] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Yuxin Qian
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Shuai Deng
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Ziyi Lu
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Yunrui She
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Jiayang Xie
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Zihao Cong
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Wenjing Zhang
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Runhui Liu
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
- Frontiers Science Center for Materiobiology and Dynamic Chemistry, Key Laboratory of Specially Functional Polymeric Materials and Related Technology (ECUST) Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, China
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9
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Dishman AF, Lee MW, de Anda J, Lee EY, He J, Huppler AR, Wong GCL, Volkman BF. Switchable Membrane Remodeling and Antifungal Defense by Metamorphic Chemokine XCL1. ACS Infect Dis 2020; 6:1204-1213. [PMID: 32243126 PMCID: PMC7258946 DOI: 10.1021/acsinfecdis.0c00011] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
![]()
Antimicrobial peptides (AMPs) are
a class of molecules which generally
kill pathogens via preferential cell membrane disruption. Chemokines
are a family of signaling proteins that direct immune cell migration
and share a conserved α–β tertiary structure. Recently,
it was found that a subset of chemokines can also function as AMPs,
including CCL20, CXCL4, and XCL1. It is therefore surprising that
machine learning based analysis predicts that CCL20 and CXCL4’s
α-helices are membrane disruptive, while XCL1’s helix
is not. XCL1, however, is the only chemokine known to be a metamorphic
protein which can interconvert reversibly between two distinct native
structures (a β-sheet dimer and the α–β chemokine
structure). Here, we investigate XCL1’s antimicrobial mechanism
of action with a focus on the role of metamorphic folding. We demonstrate
that XCL1 is a molecular “Swiss army knife” that can
refold into different structures for distinct context-dependent functions:
whereas the α–β chemokine structure controls cell
migration by binding to G-Protein Coupled Receptors (GPCRs), we find
using small angle X-ray scattering (SAXS) that only the β-sheet
and unfolded XCL1 structures can induce negative Gaussian curvature
(NGC) in membranes, the type of curvature topologically required for
membrane permeation. Moreover, the membrane remodeling activity of
XCL1’s β-sheet structure is strongly dependent on membrane
composition: XCL1 selectively remodels bacterial model membranes but
not mammalian model membranes. Interestingly, XCL1 also permeates
fungal model membranes and exhibits anti-Candida activity in vitro, in contrast to the usual mode of antifungal defense
which requires Th17 mediated cell-based responses. These observations
suggest that metamorphic XCL1 is capable of a versatile multimodal
form of antimicrobial defense.
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Affiliation(s)
- Acacia F. Dishman
- Department of Biochemistry, Medical College of Wisconsin, Milwaukee, Wisconsin 53226 United States
| | - Michelle W. Lee
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, California 90095, United States
| | - Jaime de Anda
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, California 90095, United States
| | - Ernest Y. Lee
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, California 90095, United States
- UCLA-Caltech Medical Scientist Training Program, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095, United States
| | - Jie He
- Department of Pediatrics, Medical College of Wisconsin, Milwaukee, Wisconsin 53226 United States
| | - Anna R. Huppler
- Department of Pediatrics, Medical College of Wisconsin, Milwaukee, Wisconsin 53226 United States
| | - Gerard C. L. Wong
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, California 90095, United States
| | - Brian F. Volkman
- Department of Biochemistry, Medical College of Wisconsin, Milwaukee, Wisconsin 53226 United States
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10
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Michl TD, Hibbs B, Hyde L, Postma A, Tran DTT, Zhalgasbaikyzy A, Vasilev K, Meagher L, Griesser HJ, Locock KES. Bacterial membrane permeability of antimicrobial polymethacrylates: Evidence for a complex mechanism from super-resolution fluorescence imaging. Acta Biomater 2020; 108:168-177. [PMID: 32179195 DOI: 10.1016/j.actbio.2020.03.011] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2019] [Revised: 03/03/2020] [Accepted: 03/04/2020] [Indexed: 12/31/2022]
Abstract
Amphiphilic polymers bearing cationic moieties are an emerging alternative to traditional antibiotics given their broad-spectrum activity and low susceptibility to the development of resistance. To date, however, much remains unclear regarding their mechanism of action. Using functional assays (ATP leakage, cell viability, DNA binding) and super-high resolution structured illumination microscopy (OMX-SR) of fluorescently tagged polymers, we present evidence for a complex mechanism, involving membrane permeation as well as cellular uptake, interaction with intracellular targets and possible complexation with bacterial DNA. STATEMENT OF SIGNIFICANCE: This manuscript details the first study to systematically and directly investigate the mechanism of action of antimicrobial polymers, using super-resolution fluorescence imaging as well as functional assays. While many in the field cite membrane permeation as the sole mechanism underlying the activity of such polymers, we present evidence for multimodal actions including high cellular uptake and interaction with intracellular targets. It is also the first report to show competitive binding of antimicrobial polymers with bacterial DNA in a dose-dependent manner.
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Affiliation(s)
- Thomas D Michl
- School of Engineering, University of South Australia, Mawson Lakes Blvd, Mawson Lakes, SA 5095, Australia
| | - Ben Hibbs
- Materials Characterisation and Fabrication Platform, The University of Melbourne, Parkville, VIC 3010, Australia
| | - Lauren Hyde
- Materials Characterisation and Fabrication Platform, The University of Melbourne, Parkville, VIC 3010, Australia
| | - Almar Postma
- CSIRO Manufacturing, Research Way, Clayton, VIC 3168, Australia
| | - Dung Thuy Thi Tran
- School of Engineering, University of South Australia, Mawson Lakes Blvd, Mawson Lakes, SA 5095, Australia
| | - Aigerim Zhalgasbaikyzy
- School of Engineering, University of South Australia, Mawson Lakes Blvd, Mawson Lakes, SA 5095, Australia
| | - Krasimir Vasilev
- School of Engineering, University of South Australia, Mawson Lakes Blvd, Mawson Lakes, SA 5095, Australia
| | - Laurence Meagher
- Department of Materials Science and Engineering, Monash University, Clayton, VIC 3168, Australia
| | - Hans J Griesser
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd, Mawson Lakes, SA 5095, Australia
| | - Katherine E S Locock
- CSIRO Manufacturing, Research Way, Clayton, VIC 3168, Australia; Department of Chemical Engineering, The University of Melbourne, Parkville, VIC 3010, Australia.
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11
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Lee MW, de Anda J, Kroll C, Bieniossek C, Bradley K, Amrein KE, Wong GCL. How do cyclic antibiotics with activity against Gram-negative bacteria permeate membranes? A machine learning informed experimental study. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2020; 1862:183302. [PMID: 32311341 DOI: 10.1016/j.bbamem.2020.183302] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Revised: 03/26/2020] [Accepted: 03/30/2020] [Indexed: 12/30/2022]
Abstract
All antibiotics have to engage bacterial amphiphilic barriers such as the lipopolysaccharide-rich outer membrane or the phospholipid-based inner membrane in some manner, either by disrupting them outright and/or permeating them and thereby allow the antibiotic to get into bacteria. There is a growing class of cyclic antibiotics, many of which are of bacterial origin, that exhibit activity against Gram-negative bacteria, which constitute an urgent problem in human health. We examine a diverse collection of these cyclic antibiotics, both natural and synthetic, which include bactenecin, polymyxin B, octapeptin, capreomycin, and Kirshenbaum peptoids, in order to identify what they have in common when they interact with bacterial lipid membranes. We find that they virtually all have the ability to induce negative Gaussian curvature (NGC) in bacterial membranes, the type of curvature geometrically required for permeation mechanisms such as pore formation, blebbing, and budding. This is interesting since permeation of membranes is a function usually ascribed to antimicrobial peptides (AMPs) from innate immunity. As prototypical test cases of cyclic antibiotics, we analyzed amino acid sequences of bactenecin, polymyxin B, and capreomycin using our recently developed machine-learning classifier trained on α-helical AMP sequences. Although the original classifier was not trained on cyclic antibiotics, a modified classifier approach correctly predicted that bactenecin and polymyxin B have the ability to induce NGC in membranes, while capreomycin does not. Moreover, the classifier was able to recapitulate empirical structure-activity relationships from alanine scans in polymyxin B surprisingly well. These results suggest that there exists some common ground in the sequence design of hybrid cyclic antibiotics and linear AMPs.
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Affiliation(s)
- Michelle W Lee
- Department of Bioengineering, Department of Chemistry, California NanoSystems Institute, University of California, Los Angeles, Los Angeles, CA 90095, United States
| | - Jaime de Anda
- Department of Bioengineering, Department of Chemistry, California NanoSystems Institute, University of California, Los Angeles, Los Angeles, CA 90095, United States
| | - Carsten Kroll
- Roche Pharma Research and Early Development Pharmaceutical Science, Roche, Innovation Center Basel, F. Hoffmann-La Roche Ltd, 4070 Basel, Switzerland
| | - Christoph Bieniossek
- Roche Pharma Research and Early Development Pharmaceutical Science, Roche, Innovation Center Basel, F. Hoffmann-La Roche Ltd, 4070 Basel, Switzerland
| | - Kenneth Bradley
- Roche Pharma Research and Early Development Pharmaceutical Science, Roche, Innovation Center Basel, F. Hoffmann-La Roche Ltd, 4070 Basel, Switzerland
| | - Kurt E Amrein
- Roche Pharma Research and Early Development Pharmaceutical Science, Roche, Innovation Center Basel, F. Hoffmann-La Roche Ltd, 4070 Basel, Switzerland
| | - Gerard C L Wong
- Department of Bioengineering, Department of Chemistry, California NanoSystems Institute, University of California, Los Angeles, Los Angeles, CA 90095, United States.
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12
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Lee MW, Lee EY, Ferguson AL, Wong GCL. Machine learning antimicrobial peptide sequences: Some surprising variations on the theme of amphiphilic assembly. Curr Opin Colloid Interface Sci 2018; 38:204-213. [PMID: 31093008 DOI: 10.1016/j.cocis.2018.11.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Antimicrobial peptides (AMPs) collectively constitute a key component of the host innate immune system. They span a diverse space of sequences and can be α-helical, β-sheet, or unfolded in structure. Despite a wealth of knowledge about them from decades of experiments, it remains difficult to articulate general principles governing such peptides. How are they different from other molecules that are also cationic and amphiphilic? What other functions, in immunity and otherwise, are enabled by these simple sequences? In this short review, we present some recent work that engages these questions using methods not usually applied to AMP studies, such as machine learning. We find that not only do AMP-like sequences confer membrane remodeling activity to an unexpectedly broad range of protein classes, their cationic and amphiphilic signature also allows them to act as meta-antigens and self-assemble with immune ligands into nanocrystalline complexes for multivalent presentation to Toll-like receptors.
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Affiliation(s)
- Michelle W Lee
- Department of Bioengineering, Department of Chemistry, California NanoSystems Institute, University of California, Los Angeles, CA 90095, United States
| | - Ernest Y Lee
- Department of Bioengineering, Department of Chemistry, California NanoSystems Institute, University of California, Los Angeles, CA 90095, United States
| | - Andrew L Ferguson
- Institute for Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, IL 60637, United States
| | - Gerard C L Wong
- Department of Bioengineering, Department of Chemistry, California NanoSystems Institute, University of California, Los Angeles, CA 90095, United States
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13
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Lee MW, Lee EY, Wong GCL. What Can Pleiotropic Proteins in Innate Immunity Teach Us about Bioconjugation and Molecular Design? Bioconjug Chem 2018; 29:2127-2139. [PMID: 29771496 DOI: 10.1021/acs.bioconjchem.8b00176] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
A common bioengineering strategy to add function to a given molecule is by conjugation of a new moiety onto that molecule. Adding multiple functions in this way becomes increasingly challenging and leads to composite molecules with larger molecular weights. In this review, we attempt to gain a new perspective by looking at this problem in reverse, by examining nature's strategies of multiplexing different functions into the same pleiotropic molecule using emerging analysis techniques such as machine learning. We concentrate on examples from the innate immune system, which employs a finite repertoire of molecules for a broad range of tasks. An improved understanding of how diverse functions are multiplexed into a single molecule can inspire new approaches for the deterministic design of multifunctional molecules.
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14
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Lee M, Lee EY, Lai GH, Kennedy NW, Posey AE, Xian W, Ferguson AL, Hill RB, Wong GCL. Molecular Motor Dnm1 Synergistically Induces Membrane Curvature To Facilitate Mitochondrial Fission. ACS CENTRAL SCIENCE 2017; 3:1156-1167. [PMID: 29202017 PMCID: PMC5704292 DOI: 10.1021/acscentsci.7b00338] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2017] [Indexed: 05/30/2023]
Abstract
Dnm1 and Fis1 are prototypical proteins that regulate yeast mitochondrial morphology by controlling fission, the dysregulation of which can result in developmental disorders and neurodegenerative diseases in humans. Loss of Dnm1 blocks the formation of fission complexes and leads to elongated mitochondria in the form of interconnected networks, while overproduction of Dnm1 results in excessive mitochondrial fragmentation. In the current model, Dnm1 is essentially a GTP hydrolysis-driven molecular motor that self-assembles into ring-like oligomeric structures that encircle and pinch the outer mitochondrial membrane at sites of fission. In this work, we use machine learning and synchrotron small-angle X-ray scattering (SAXS) to investigate whether the motor Dnm1 can synergistically facilitate mitochondrial fission by membrane remodeling. A support vector machine (SVM)-based classifier trained to detect sequences with membrane-restructuring activity identifies a helical Dnm1 domain capable of generating negative Gaussian curvature (NGC), the type of saddle-shaped local surface curvature found on scission necks during fission events. Furthermore, this domain is highly conserved in Dnm1 homologues with fission activity. Synchrotron SAXS measurements reveal that Dnm1 restructures membranes into phases rich in NGC, and is capable of inducing a fission neck with a diameter of 12.6 nm. Through in silico mutational analysis, we find that the helical Dnm1 domain is locally optimized for membrane curvature generation, and phylogenetic analysis suggests that dynamin superfamily proteins that are close relatives of human dynamin Dyn1 have evolved the capacity to restructure membranes via the induction of curvature mitochondrial fission. In addition, we observe that Fis1, an adaptor protein, is able to inhibit the pro-fission membrane activity of Dnm1, which points to the antagonistic roles of the two proteins in the regulation of mitochondrial fission.
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Affiliation(s)
- Michelle
W. Lee
- Department
of Bioengineering, Department of Chemistry & Biochemistry, and California NanoSystems
Institute, University of California, Los
Angeles, Los Angeles, California 90095, United States
| | - Ernest Y. Lee
- Department
of Bioengineering, Department of Chemistry & Biochemistry, and California NanoSystems
Institute, University of California, Los
Angeles, Los Angeles, California 90095, United States
| | - Ghee Hwee Lai
- Department
of Bioengineering, Department of Chemistry & Biochemistry, and California NanoSystems
Institute, University of California, Los
Angeles, Los Angeles, California 90095, United States
| | - Nolan W. Kennedy
- Department
of Biochemistry, Medical College of Wisconsin, Milwaukee, Wisconsin 53226, United States
| | - Ammon E. Posey
- Department
of Biomedical Engineering, Washington University
in St. Louis, St. Louis, Missouri 63130, United
States
| | - Wujing Xian
- Department
of Bioengineering, Department of Chemistry & Biochemistry, and California NanoSystems
Institute, University of California, Los
Angeles, Los Angeles, California 90095, United States
| | - Andrew L. Ferguson
- Department of Materials Science
and Engineering and Department of Chemical and Biomolecular
Engineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - R. Blake Hill
- Department
of Biochemistry, Medical College of Wisconsin, Milwaukee, Wisconsin 53226, United States
| | - Gerard C. L. Wong
- Department
of Bioengineering, Department of Chemistry & Biochemistry, and California NanoSystems
Institute, University of California, Los
Angeles, Los Angeles, California 90095, United States
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15
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Lee EY, Lee MW, Fulan BM, Ferguson AL, Wong GCL. What can machine learning do for antimicrobial peptides, and what can antimicrobial peptides do for machine learning? Interface Focus 2017; 7:20160153. [PMID: 29147555 DOI: 10.1098/rsfs.2016.0153] [Citation(s) in RCA: 70] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023] Open
Abstract
Antimicrobial peptides (AMPs) are a diverse class of well-studied membrane-permeating peptides with important functions in innate host defense. In this short review, we provide a historical overview of AMPs, summarize previous applications of machine learning to AMPs, and discuss the results of our studies in the context of the latest AMP literature. Much work has been recently done in leveraging computational tools to design new AMP candidates with high therapeutic efficacies for drug-resistant infections. We show that machine learning on AMPs can be used to identify essential physico-chemical determinants of AMP functionality, and identify and design peptide sequences to generate membrane curvature. In a broader scope, we discuss the implications of our findings for the discovery of membrane-active peptides in general, and uncovering membrane activity in new and existing peptide taxonomies.
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Affiliation(s)
- Ernest Y Lee
- Department of Bioengineering, University of California, Los Angeles, CA 90095, USA
| | - Michelle W Lee
- Department of Bioengineering, University of California, Los Angeles, CA 90095, USA
| | - Benjamin M Fulan
- Department of Mathematics, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Andrew L Ferguson
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.,Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Gerard C L Wong
- Department of Bioengineering, University of California, Los Angeles, CA 90095, USA
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16
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Machine learning-enabled discovery and design of membrane-active peptides. Bioorg Med Chem 2017; 26:2708-2718. [PMID: 28728899 DOI: 10.1016/j.bmc.2017.07.012] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2017] [Revised: 06/29/2017] [Accepted: 07/06/2017] [Indexed: 11/23/2022]
Abstract
Antimicrobial peptides are a class of membrane-active peptides that form a critical component of innate host immunity and possess a diversity of sequence and structure. Machine learning approaches have been profitably employed to efficiently screen sequence space and guide experiment towards promising candidates with high putative activity. In this mini-review, we provide an introduction to antimicrobial peptides and summarize recent advances in machine learning-enabled antimicrobial peptide discovery and design with a focus on a recent work Lee et al. Proc. Natl. Acad. Sci. USA 2016;113(48):13588-13593. This study reports the development of a support vector machine classifier to aid in the design of membrane active peptides. We use this model to discover membrane activity as a multiplexed function in diverse peptide families and provide interpretable understanding of the physicochemical properties and mechanisms governing membrane activity. Experimental validation of the classifier reveals it to have learned membrane activity as a unifying signature of antimicrobial peptides with diverse modes of action. Some of the discriminating rules by which it performs classification are in line with existing "human learned" understanding, but it also unveils new previously unknown determinants and multidimensional couplings governing membrane activity. Integrating machine learning with targeted experimentation can guide both antimicrobial peptide discovery and design and new understanding of the properties and mechanisms underpinning their modes of action.
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17
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Kaplan A, Lee MW, Wolf AJ, Limon JJ, Becker CA, Ding M, Murali R, Lee EY, Liu GY, Wong GCL, Underhill DM. Direct Antimicrobial Activity of IFN-β. JOURNAL OF IMMUNOLOGY (BALTIMORE, MD. : 1950) 2017; 198:4036-4045. [PMID: 28411186 PMCID: PMC5469413 DOI: 10.4049/jimmunol.1601226] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 03/10/2017] [Indexed: 01/08/2023]
Abstract
Type I IFNs are a cytokine family essential for antiviral defense. More recently, type I IFNs were shown to be important during bacterial infections. In this article, we show that, in addition to known cytokine functions, IFN-β is antimicrobial. Parts of the IFN-β molecular surface (especially helix 4) are cationic and amphipathic, both classic characteristics of antimicrobial peptides, and we observed that IFN-β can directly kill Staphylococcus aureus Further, a mutant S. aureus that is more sensitive to antimicrobial peptides was killed more efficiently by IFN-β than was the wild-type S. aureus, and immunoblotting showed that IFN-β interacts with the bacterial cell surface. To determine whether specific parts of IFN-β are antimicrobial, we synthesized IFN-β helix 4 and found that it is sufficient to permeate model prokaryotic membranes using synchrotron x-ray diffraction and that it is sufficient to kill S. aureus These results suggest that, in addition to its well-known signaling activity, IFN-β may be directly antimicrobial and be part of a growing family of cytokines and chemokines, called kinocidins, that also have antimicrobial properties.
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Affiliation(s)
- Amber Kaplan
- Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA 90095
| | - Michelle W Lee
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095
- California NanoSystems Institute, University of California, Los Angeles, Los Angeles, CA 90095
| | - Andrea J Wolf
- F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA 90048
| | - Jose J Limon
- F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA 90048
| | - Courtney A Becker
- F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA 90048
| | - Minna Ding
- F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA 90048
| | - Ramachandran Murali
- Research Division of Immunology, Cedars-Sinai Medical Center, Los Angeles, CA 90048; and
| | - Ernest Y Lee
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095
- California NanoSystems Institute, University of California, Los Angeles, Los Angeles, CA 90095
| | - George Y Liu
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095
- Division of Pediatric Infectious Diseases, Cedars-Sinai Medical Center, Los Angeles, CA 90048
| | - Gerard C L Wong
- Department of Bioengineering, University of California, Los Angeles, Los Angeles, CA 90095;
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095
- California NanoSystems Institute, University of California, Los Angeles, Los Angeles, CA 90095
| | - David M Underhill
- F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA 90048;
- Research Division of Immunology, Cedars-Sinai Medical Center, Los Angeles, CA 90048; and
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18
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Lee MW, Han M, Bossa GV, Snell C, Song Z, Tang H, Yin L, Cheng J, May S, Luijten E, Wong GCL. Interactions between Membranes and "Metaphilic" Polypeptide Architectures with Diverse Side-Chain Populations. ACS NANO 2017; 11:2858-2871. [PMID: 28212487 DOI: 10.1021/acsnano.6b07981] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
At physiological conditions, most proteins or peptides can fold into relatively stable structures that present on their molecular surfaces specific chemical patterns partially smeared out by thermal fluctuations. These nanoscopically defined patterns of charge, hydrogen bonding, and/or hydrophobicity, along with their elasticity and shape stability (folded proteins have Young's moduli of ∼1 × 108 Pa), largely determine and limit the interactions of these molecules, such as molecular recognition and allosteric regulation. In this work, we show that the membrane-permeating activity of antimicrobial peptides (AMPs) and cell-penetrating peptides (CPPs) can be significantly enhanced using prototypical peptides with "molten" surfaces: metaphilic peptides with quasi-liquid surfaces and adaptable shapes. These metaphilic peptides have a bottlebrush-like architecture consisting of a rigid helical core decorated with mobile side chains that are terminated by cationic or hydrophobic groups. Computer simulations show that these flexible side chains can undergo significant rearrangement in response to different environments, giving rise to adaptable surface chemistry of the peptide. This quality makes it possible to control their hydrophobicity over a broad range while maintaining water solubility, unlike many AMPs and CPPs. Thus, we are able to show how the activity of these peptides is amplified by hydrophobicity and cationic charge, and rationalize these results using a quantitative mean-field theory. Computer simulations show that the shape-changing properties of the peptides and the resultant adaptive presentation of chemistry play a key enabling role in their interactions with membranes.
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Affiliation(s)
| | | | - Guilherme Volpe Bossa
- Department of Physics, North Dakota State University , Fargo, North Dakota 58108, United States
| | - Carly Snell
- Department of Physics, North Dakota State University , Fargo, North Dakota 58108, United States
| | - Ziyuan Song
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Haoyu Tang
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Lichen Yin
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Jianjun Cheng
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Sylvio May
- Department of Physics, North Dakota State University , Fargo, North Dakota 58108, United States
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19
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Uppu DSSM, Samaddar S, Hoque J, Konai MM, Krishnamoorthy P, Shome BR, Haldar J. Side Chain Degradable Cationic–Amphiphilic Polymers with Tunable Hydrophobicity Show in Vivo Activity. Biomacromolecules 2016; 17:3094-102. [DOI: 10.1021/acs.biomac.6b01057] [Citation(s) in RCA: 61] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Divakara S. S. M. Uppu
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bangalore 560064, India
| | - Sandip Samaddar
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bangalore 560064, India
| | - Jiaul Hoque
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bangalore 560064, India
| | - Mohini M. Konai
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bangalore 560064, India
| | - Paramanandham Krishnamoorthy
- ICAR-National Institute of Veterinary Epidemiology and Disease Informatics (NIVEDI), Ramagondanahalli, Yelahanka, Bengaluru 560064, India
| | - Bibek R. Shome
- ICAR-National Institute of Veterinary Epidemiology and Disease Informatics (NIVEDI), Ramagondanahalli, Yelahanka, Bengaluru 560064, India
| | - Jayanta Haldar
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bangalore 560064, India
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20
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Roos K, Planes M, Bakkali-Hassani C, Mehats J, Vax A, Carlotti S. Solvent-Free Anionic Polymerization of Acrylamide: A Mechanistic Study for the Rapid and Controlled Synthesis of Polyamide-3. Macromolecules 2016. [DOI: 10.1021/acs.macromol.5b02410] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Kevin Roos
- LCPO, UMR 5629, University of Bordeaux, F-33600 Pessac, France
- LCPO, UMR 5629, CNRS, F-33600 Pessac, France
- UMR 5629, Bordeaux INP, F-33600 Pessac, France
| | - Mikael Planes
- LCPO, UMR 5629, University of Bordeaux, F-33600 Pessac, France
- LCPO, UMR 5629, CNRS, F-33600 Pessac, France
- UMR 5629, Bordeaux INP, F-33600 Pessac, France
| | - Camille Bakkali-Hassani
- LCPO, UMR 5629, University of Bordeaux, F-33600 Pessac, France
- LCPO, UMR 5629, CNRS, F-33600 Pessac, France
- UMR 5629, Bordeaux INP, F-33600 Pessac, France
| | - Jérémy Mehats
- LCPO, UMR 5629, University of Bordeaux, F-33600 Pessac, France
- LCPO, UMR 5629, CNRS, F-33600 Pessac, France
- UMR 5629, Bordeaux INP, F-33600 Pessac, France
| | - Amelie Vax
- LCPO, UMR 5629, University of Bordeaux, F-33600 Pessac, France
- LCPO, UMR 5629, CNRS, F-33600 Pessac, France
- UMR 5629, Bordeaux INP, F-33600 Pessac, France
| | - Stephane Carlotti
- LCPO, UMR 5629, University of Bordeaux, F-33600 Pessac, France
- LCPO, UMR 5629, CNRS, F-33600 Pessac, France
- UMR 5629, Bordeaux INP, F-33600 Pessac, France
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21
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Uppu DSSM, Haldar J. Lipopolysaccharide Neutralization by Cationic-Amphiphilic Polymers through Pseudoaggregate Formation. Biomacromolecules 2016; 17:862-73. [DOI: 10.1021/acs.biomac.5b01567] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Divakara S. S. M. Uppu
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit (NCU), Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bengaluru, Karnataka 560064, India
| | - Jayanta Haldar
- Chemical Biology & Medicinal Chemistry Laboratory, New Chemistry Unit (NCU), Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR), Jakkur, Bengaluru, Karnataka 560064, India
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22
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Choi H, Chakraborty S, Liu R, Gellman SH, Weisshaar JC. Single-Cell, Time-Resolved Antimicrobial Effects of a Highly Cationic, Random Nylon-3 Copolymer on Live Escherichia coli. ACS Chem Biol 2016; 11:113-20. [PMID: 26493221 DOI: 10.1021/acschembio.5b00547] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Synthetic random copolymers based on the nylon-3 (β-peptide) backbone show promise as inexpensive antimicrobial agents resistant to proteolysis. We present a time-resolved observational study of the attack of a particular copolymer MM63:CHx37 on single, live Escherichia coli cells. The composition and chain length of MM63:CHx37 (63% cationic subunits, 37% hydrophobic subunits, 35-subunit average length) were optimized to enhance antibacterial activity while minimizing lysis of human red blood cells. For E. coli cells that export GFP to the periplasm, we obtain alternating phase-contrast and green fluorescence images with a time resolution of 12 s over 60 min following initiation of copolymer flow. Within seconds, cells shrink and exhibit the same plasmolysis spaces that occur following abrupt external osmotic upshift. The osmoprotection machinery attempts to replenish cytoplasmic water, but recovery is interrupted by permeabilization of the cytoplasmic membrane (CM) to GFP. Evidently, the highly cationic copolymer and its counterions rapidly translocate across the outer membrane without permeabilizing it to GFP. The CM permeabilization event is spatially localized. Cells whose CM has been permeabilized never recover growth. The minimum inhibitory concentration (MIC) for cells lacking the osmolyte importer ProP is 4-fold smaller than for normal cells, suggesting that osmoprotection is an important survival strategy. In addition, at the time of CM permeabilization, we observe evidence of oxidative stress. The MIC under anaerobic conditions is at least 8-fold larger than under aerobic conditions, further implicating oxidative damage as an important bacteriostatic effect. Once the copolymer reaches the periplasm, multiple growth-halting mechanisms proceed in parallel.
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Affiliation(s)
- Heejun Choi
- Department of Chemistry and ‡Molecular Biophysics
Program, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Saswata Chakraborty
- Department of Chemistry and ‡Molecular Biophysics
Program, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Runhui Liu
- Department of Chemistry and ‡Molecular Biophysics
Program, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Samuel H. Gellman
- Department of Chemistry and ‡Molecular Biophysics
Program, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - James C. Weisshaar
- Department of Chemistry and ‡Molecular Biophysics
Program, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
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23
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Kaneti G, Meir O, Mor A. Controlling bacterial infections by inhibiting proton-dependent processes. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2015; 1858:995-1003. [PMID: 26522076 DOI: 10.1016/j.bbamem.2015.10.022] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2015] [Revised: 10/20/2015] [Accepted: 10/27/2015] [Indexed: 12/15/2022]
Abstract
Bacterial resistance to antibiotics is recognized as one of the greatest threats in modern healthcare, taking a staggering toll worldwide. New approaches for controlling bacterial infections must be designed, eventually combining multiple strategies for complimentary therapies. This review explores an old/new paradigm for multi-targeted antibacterial therapy, focused at disturbing bacterial cytoplasmic membrane functions at sub minimal inhibitory concentrations, namely through superficial physical alterations of the bilayer, thereby perturbing transmembrane signals transduction. Such a paradigm may have the advantage of fighting the infection while avoiding many of the known resistance mechanisms. This article is part of a Special Issue entitled: Antimicrobial peptides edited by Karl Lohner and Kai Hilpert.
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Affiliation(s)
- Galoz Kaneti
- Department of Biotechnology & Food Engineering, Technion-Israel Institute of Technology, Haifa 32000, Israel
| | - Ohad Meir
- Department of Biotechnology & Food Engineering, Technion-Israel Institute of Technology, Haifa 32000, Israel
| | - Amram Mor
- Department of Biotechnology & Food Engineering, Technion-Israel Institute of Technology, Haifa 32000, Israel.
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Xiong M, Lee MW, Mansbach RA, Song Z, Bao Y, Peek RM, Yao C, Chen LF, Ferguson AL, Wong GCL, Cheng J. Helical antimicrobial polypeptides with radial amphiphilicity. Proc Natl Acad Sci U S A 2015; 112:13155-60. [PMID: 26460016 PMCID: PMC4629321 DOI: 10.1073/pnas.1507893112] [Citation(s) in RCA: 147] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
Abstract
α-Helical antimicrobial peptides (AMPs) generally have facially amphiphilic structures that may lead to undesired peptide interactions with blood proteins and self-aggregation due to exposed hydrophobic surfaces. Here we report the design of a class of cationic, helical homo-polypeptide antimicrobials with a hydrophobic internal helical core and a charged exterior shell, possessing unprecedented radial amphiphilicity. The radially amphiphilic structure enables the polypeptide to bind effectively to the negatively charged bacterial surface and exhibit high antimicrobial activity against both gram-positive and gram-negative bacteria. Moreover, the shielding of the hydrophobic core by the charged exterior shell decreases nonspecific interactions with eukaryotic cells, as evidenced by low hemolytic activity, and protects the polypeptide backbone from proteolytic degradation. The radially amphiphilic polypeptides can also be used as effective adjuvants, allowing improved permeation of commercial antibiotics in bacteria and enhanced antimicrobial activity by one to two orders of magnitude. Designing AMPs bearing this unprecedented, unique radially amphiphilic structure represents an alternative direction of AMP development; radially amphiphilic polypeptides may become a general platform for developing AMPs to treat drug-resistant bacteria.
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Affiliation(s)
- Menghua Xiong
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Michelle W Lee
- Department of Bioengineering, Department of Chemistry and Biochemistry, California NanoSystems Institute, University of California, Los Angeles, CA 90095
| | - Rachael A Mansbach
- Department of Physics, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Ziyuan Song
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Yan Bao
- Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Richard M Peek
- Division of Gastroenterology, Department of Medicine and Cancer Biology, Vanderbilt University School of Medicine, Nashville, TN 37232
| | - Catherine Yao
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Lin-Feng Chen
- Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Andrew L Ferguson
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801; Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Gerard C L Wong
- Department of Bioengineering, Department of Chemistry and Biochemistry, California NanoSystems Institute, University of California, Los Angeles, CA 90095;
| | - Jianjun Cheng
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801;
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Hu K, Jiang Y, Xie Y, Liu H, Liu R, Zhao Z, Lai R, Yang L. Small-Anion Selective Transmembrane "Holes" Induced by an Antimicrobial Peptide Too Short to Span Membranes. J Phys Chem B 2015; 119:8553-60. [PMID: 26126210 DOI: 10.1021/acs.jpcb.5b03133] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Whereas many membrane-destabilization modes have been suggested for membrane-spanning antimicrobial peptides (AMPs), few are available for those too short to span membrane thickness. Here we show that ORB-1, a 15-residue disulfide-bridged AMP that is only ∼20 Å long even when fully stretched like a hairpin, may act by inducing small anion-selective transmembrane "holes" of negative mean curvature. In model membranes of Gram-negative bacteria, ORB-1 induces chloride transmembrane transport and formation of transmembrane channels of negative mean curvature, whereas the inactive analogue, ORB-N, does not, suggesting a correlation between antibacterial activity and ability to induce transmembrane channels. Given that ORB-N is the C-terminus amidated form of ORB-1, our results further suggest that formation of membrane-spanning dimers may be required to initiate the observed channel induction. Moreover, ORB-1 renders model bacterial membranes permeable to anions with effective hydration diameters of <1 nm (e.g., Cl(-) and NO3(-)), but not cations of similar sizes (e.g., H3O(+)), indicative of anion-selective transmembrane channels with an effective inner diameter of ≤1 nm. In addition, negative-intrinsic-curvature (NIC) lipids such as phosphoethanolamine (PE) may facilitate the membrane-destabilization process of ORB-1. Our findings may expand current understandings on how AMPs destabilize membranes and facilitate the pharmaceutical development of ORB-1.
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Affiliation(s)
| | | | | | | | - Rui Liu
- ‡Biotoxin Units of Key Laboratory of Animal Models and Human Disease Mechanisms, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
| | | | - Ren Lai
- ‡Biotoxin Units of Key Laboratory of Animal Models and Human Disease Mechanisms, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
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