51
|
Abstract
Covering: 2006 to 2017Actinomycetes have been, for decades, one of the most important sources for the discovery of new antibiotics with an important number of drugs and analogs successfully introduced in the market and still used today in clinical practice. The intensive antibacterial discovery effort that generated the large number of highly potent broad-spectrum antibiotics, has seen a dramatic decline in the large pharma industry in the last two decades resulting in a lack of new classes of antibiotics with novel mechanisms of action reaching the clinic. Whereas the decline in the number of new chemical scaffolds and the rediscovery problem of old known molecules has become a hurdle for industrial natural products discovery programs, new actinomycetes compounds and leads have continued to be discovered and developed to the preclinical stages. Actinomycetes are still one of the most important sources of chemical diversity and a reservoir to mine for novel structures that is requiring the integration of diverse disciplines. These can range from novel strategies to isolate species previously not cultivated, innovative whole cell screening approaches and on-site analytical detection and dereplication tools for novel compounds, to in silico biosynthetic predictions from whole gene sequences and novel engineered heterologous expression, that have inspired the isolation of new NPs and shown their potential application in the discovery of novel antibiotics. This review will address the discovery of antibiotics from actinomycetes from two different perspectives including: (1) an update of the most important antibiotics that have only reached the clinical development in the recent years despite their early discovery, and (2) an overview of the most recent classes of antibiotics described from 2006 to 2017 in the framework of the different strategies employed to untap novel compounds previously overlooked with traditional approaches.
Collapse
Affiliation(s)
- Olga Genilloud
- Fundación MEDINA, Avda Conocimiento 34, 18016 Granada, Spain.
| |
Collapse
|
52
|
Antibacterial Activity and Composition of the Fermentation Broth of Streptomyces Parvus 33. Jundishapur J Microbiol 2017. [DOI: 10.5812/jjm.12677] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
|
53
|
Dutta D, Mishra S. Active Site Dynamics in Substrate Hydrolysis Catalyzed by DapE Enzyme and Its Mutants from Hybrid QM/MM-Molecular Dynamics Simulation. J Phys Chem B 2017; 121:7075-7085. [DOI: 10.1021/acs.jpcb.7b04431] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Debodyuti Dutta
- Department of Chemistry, Indian Institute of Technology Kharagpur, Kharagpur 721302, India
| | - Sabyashachi Mishra
- Department of Chemistry, Indian Institute of Technology Kharagpur, Kharagpur 721302, India
| |
Collapse
|
54
|
Dhakal D, Pokhrel AR, Shrestha B, Sohng JK. Marine Rare Actinobacteria: Isolation, Characterization, and Strategies for Harnessing Bioactive Compounds. Front Microbiol 2017; 8:1106. [PMID: 28663748 PMCID: PMC5471306 DOI: 10.3389/fmicb.2017.01106] [Citation(s) in RCA: 85] [Impact Index Per Article: 12.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Accepted: 05/31/2017] [Indexed: 12/28/2022] Open
Abstract
Actinobacteria are prolific producers of thousands of biologically active natural compounds with diverse activities. More than half of these bioactive compounds have been isolated from members belonging to actinobacteria. Recently, rare actinobacteria existing at different environmental settings such as high altitudes, volcanic areas, and marine environment have attracted attention. It has been speculated that physiological or biochemical pressures under such harsh environmental conditions can lead to the production of diversified natural compounds. Hence, marine environment has been focused for the discovery of novel natural products with biological potency. Many novel and promising bioactive compounds with versatile medicinal, industrial, or agricultural uses have been isolated and characterized. The natural compounds cannot be directly used as drug or other purposes, so they are structurally modified and diversified to ameliorate their biological or chemical properties. Versatile synthetic biological tools, metabolic engineering techniques, and chemical synthesis platform can be used to assist such structural modification. This review summarizes the latest studies on marine rare actinobacteria and their natural products with focus on recent approaches for structural and functional diversification of such microbial chemicals for attaining better applications.
Collapse
Affiliation(s)
- Dipesh Dhakal
- Department of Life Science and Biochemical Engineering, Sun Moon UniversityAsan-si, South Korea
| | - Anaya Raj Pokhrel
- Department of Life Science and Biochemical Engineering, Sun Moon UniversityAsan-si, South Korea
| | - Biplav Shrestha
- Department of Life Science and Biochemical Engineering, Sun Moon UniversityAsan-si, South Korea
| | - Jae Kyung Sohng
- Department of Life Science and Biochemical Engineering, Sun Moon UniversityAsan-si, South Korea.,Department of BT-Convergent Pharmaceutical Engineering, Sun Moon University Asan-siSouth Korea
| |
Collapse
|
55
|
Liu Z, Sun H, Ren K. A Multiplexed, Gradient-Based, Full-Hydrogel Microfluidic Platform for Rapid, High-Throughput Antimicrobial Susceptibility Testing. Chempluschem 2017; 82:792-801. [PMID: 31961536 DOI: 10.1002/cplu.201600654] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Revised: 02/25/2017] [Indexed: 11/07/2022]
Abstract
Antimicrobial resistance has become an immediate threat to modern healthcare systems as it continues to spread across the globe. As development of novel antibiotics stalls, preserving the effectiveness of existing agents has become a priority. One of the major driving forces behind antimicrobial resistance is the misuse and overuse of antibiotics, often a result of data on the susceptibility of pathogens not being obtained in a convenient and timely manner, a need that conventional antimicrobial susceptibility testing struggles to meet. Here, a hydrogel microfluidic platform is reported for antimicrobial susceptibility testing purposes, capable of handling real samples and yielding results within 2.5 h of culture. By using a multiplayer design with channels crossing overhead of each other, multiple experiments, either one- or two-dimensional, can be staged on the same device. Bacteria grown on the surface of the hydrogel can be easily visualized with standard Gram staining after being transferred onto a glass slide. Coupled with software-based image analysis, the system can yield a variety of useful information on bacterial susceptibility and the effects of drugs, such as minimum inhibitory concentration and morphological changes in bacteria, either individually or in combination. Compared to conventional testing methods, this system requires less labor, reagents, and equipment to operate, and has significantly higher speed and efficiency.
Collapse
Affiliation(s)
- Zhengzhi Liu
- Department of Chemistry, Hong Kong Baptist University, Waterloo Rd, Kowloon, Hong Kong, P. R China
| | - Han Sun
- Department of Chemistry, Hong Kong Baptist University, Waterloo Rd, Kowloon, Hong Kong, P. R China
| | - Kangning Ren
- Department of Chemistry, Hong Kong Baptist University, Waterloo Rd, Kowloon, Hong Kong, P. R China.,State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Waterloo Rd, Kowloon, Hong Kong, P. R China.,Institute of Research and Continuing Education, Hong Kong Baptist University, Shenzhen, P. R China
| |
Collapse
|
56
|
Scaffaro R, Lopresti F, Sutera A, Botta L, Fontana RM, Gallo G. Plasma modified PLA electrospun membranes for actinorhodin production intensification in Streptomyces coelicolor immobilized-cell cultivations. Colloids Surf B Biointerfaces 2017; 157:233-241. [PMID: 28599184 DOI: 10.1016/j.colsurfb.2017.05.060] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2017] [Revised: 05/15/2017] [Accepted: 05/23/2017] [Indexed: 12/29/2022]
Abstract
Most of industrially relevant bioproducts are produced by submerged cultivations of actinomycetes. The immobilization of these Gram-positive filamentous bacteria on suitable porous supports may prevent mycelial cell-cell aggregation and pellet formation which usually negatively affect actinomycete submerged cultivations, thus, resulting in an improved biosynthetic capability. In this work, electrospun polylactic acid (PLA) membranes, subjected or not to O2-plasma treatment (PLA-plasma), were used as support for immobilized-cell submerged cultivations of Streptomyces coelicolor M145. This strain produces different bioactive compounds, including the blue-pigmented actinorhodin (ACT) and red-pigmented undecylprodigiosin (RED), and constitutes a model for the study of antibiotic-producing actinomycetes. Wet contact angles and X-ray photoelectron spectroscopy analysis confirmed the increased wettability of PLA-plasma due to the formation of polar functional groups such as carboxyl and hydroxyl moieties. Scanning electron microscope observations, carried out at different incubation times, revealed that S. coelicolor immobilized-cells created a dense "biofilm-like" mycelial network on both kinds of PLA membranes. Cultures of S. coelicolor immobilized-cells on PLA or PLA-plasma membranes produced higher biomass (between 1.5 and 2 fold) as well as higher levels of RED and ACT than planktonic cultures. In particular, cultures of immobilized-cells on PLA and PLA-plasma produced comparable levels of RED that were approximatively 4 and 5 fold higher than those produced by planktonic cultures, respectively. In contrast, levels of ACT produced by immobilized-cell cultures on PLA and PLA-plasma were different, being 5 and 10 fold higher than those of planktonic cultures, respectively. Therefore, this is study demonstrated the positive influence of PLA membrane on growth and secondary metabolite production in S. coelicolor and also revealed that O2-plasma treated PLA membranes specifically promoted higher ACT production than not treated membranes.
Collapse
Affiliation(s)
- Roberto Scaffaro
- University of Palermo, Dipartimento di Ingegneria Civile, Ambientale, Aerospaziale, dei Materiali, Viale delle Scienze Ed. 6, RU INSTM, 90128 Palermo, Italy.
| | - Francesco Lopresti
- University of Palermo, Dipartimento di Ingegneria Civile, Ambientale, Aerospaziale, dei Materiali, Viale delle Scienze Ed. 6, RU INSTM, 90128 Palermo, Italy
| | - Alberto Sutera
- University of Palermo, Dipartimento di Scienze e Tecnologie Biologiche, Chimiche e Farmaceutiche, Viale delle Scienze Ed. 16, 90128 Palermo, Italy
| | - Luigi Botta
- University of Palermo, Dipartimento di Ingegneria Civile, Ambientale, Aerospaziale, dei Materiali, Viale delle Scienze Ed. 6, RU INSTM, 90128 Palermo, Italy
| | - Rosa Maria Fontana
- University of Palermo, Dipartimento di Scienze e Tecnologie Biologiche, Chimiche e Farmaceutiche, Viale delle Scienze Ed. 16, 90128 Palermo, Italy
| | - Giuseppe Gallo
- University of Palermo, Dipartimento di Scienze e Tecnologie Biologiche, Chimiche e Farmaceutiche, Viale delle Scienze Ed. 16, 90128 Palermo, Italy
| |
Collapse
|
57
|
Malhadas C, Malheiro R, Pereira JA, de Pinho PG, Baptista P. Antimicrobial activity of endophytic fungi from olive tree leaves. World J Microbiol Biotechnol 2017; 33:46. [PMID: 28168624 DOI: 10.1007/s11274-017-2216-7] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2016] [Accepted: 01/18/2017] [Indexed: 12/14/2022]
Abstract
In this study, the antimicrobial potential of three fungal endophytes from leaves of Olea europaea L. was evaluated and the host plant extract effect in the antimicrobial activity was examined. The volatile compounds produced by endophytes were identified by GC/MS and further correlated with the antimicrobial activity. In potato dextrose agar, both Penicillium commune and Penicillium canescens were the most effective inhibiting Gram-positive and -negative bacteria (up to 2.7-fold compared to 30 µg/mL chloramphenicol), whereas Alternaria alternata was most effective inhibiting yeasts (up to 8.0-fold compared to 25 μg/mL fluconazole). The presence of aqueous leaf extract in culture medium showed to induce or repress the antimicrobial activity, depending on the endophytic species. In the next step, various organic extracts from both A. alternata mycelium and cultured broth were prepared; being ethyl acetate extracts displayed the widest spectrum of anti-microorganisms at a minimum inhibitory concentration ≤0.095 mg/mL. The volatile composition of the fungi that displayed the highest (A. alternata) and the lowest (P. canescens) antimicrobial activity against yeasts revealed the presence of six volatiles, being the most abundant components (3-methyl-1-butanol and phenylethyl alcohol) ascribed with antimicrobial potentialities. Overall the results highlighted for the first time the antimicrobial potential of endophytic fungi from O. europaea and the possibility to be exploited for their antimicrobial agents.
Collapse
Affiliation(s)
- Cynthia Malhadas
- REQUIMTE-LAQV, School of Agriculture, Polytechnic Institute of Bragança, Campus de Santa Apolónia, 5300-253, Bragança, Portugal
| | - Ricardo Malheiro
- REQUIMTE-LAQV, School of Agriculture, Polytechnic Institute of Bragança, Campus de Santa Apolónia, 5300-253, Bragança, Portugal
| | - José Alberto Pereira
- REQUIMTE-LAQV, School of Agriculture, Polytechnic Institute of Bragança, Campus de Santa Apolónia, 5300-253, Bragança, Portugal
| | - Paula Guedes de Pinho
- REQUIMTE/Laboratory of Toxicology, Faculty of Pharmacy, Porto University, Rua Jorge Viterbo Ferreira 228, 4050-313, Porto, Portugal
| | - Paula Baptista
- REQUIMTE-LAQV, School of Agriculture, Polytechnic Institute of Bragança, Campus de Santa Apolónia, 5300-253, Bragança, Portugal.
| |
Collapse
|
58
|
Simplifying multidimensional fermentation dataset analysis and visualization: One step closer to capturing high-quality mutant strains. Sci Rep 2017; 7:39875. [PMID: 28045110 PMCID: PMC5206668 DOI: 10.1038/srep39875] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2016] [Accepted: 11/28/2016] [Indexed: 12/23/2022] Open
Abstract
In this study, we analyzed mutants of Clostridium acetobutylicum, an organism used in a broad range of industrial processes related to biofuel production, to facilitate future studies of bioreactor and bioprocess design and scale-up, which are very important research projects for industrial microbiology applications. To accomplish this, we generated 329 mutant strains and applied principal component analysis (PCA) to fermentation data gathered from these strains to identify a core set of independent features for comparison. By doing so, we were able to explain the differences in the mutant strains' fermentation expression states and simplify the analysis and visualization of the multidimensional datasets related to the strains. Our study has produced a high-efficiency PCA application based on a data analytics tool that is designed to visualize screening results and to support several hundred sets of data on fermentation interactions to assist researchers in more precisely screening and capturing high-quality mutant strains. More importantly, although this study focused on the use of PCA in microbial fermentation engineering, its results are broadly applicable.
Collapse
|
59
|
Molecular Mechanism of Drug Resistance. DRUG RESISTANCE IN BACTERIA, FUNGI, MALARIA, AND CANCER 2017. [PMCID: PMC7122190 DOI: 10.1007/978-3-319-48683-3_3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
The treatment of microbial infections has suffered greatly in this present century of pathogen dominance. Inspite of extensive research efforts and scientific advancements, the worldwide emergence of microbial tolerance continues to plague survivability. The innate property of microbe to resist any antibiotic due to evolution is the virtue of intrinsic resistance. However, the classical genetic mutations and extrachromosomal segments causing gene exchange attribute to acquired tolerance development. Rampant use of antimicrobials causes certain selection pressure which increases the resistance frequency. Genomic duplication, enzymatic site modification, target alteration, modulation in membrane permeability, and the efflux pump mechanism are the major contributors of multidrug resistance (MDR), specifically antibiotic tolerance development. MDRs will lead to clinical failures for treatment and pose health crisis. The molecular mechanisms of antimicrobial resistance are diverse as well as complex and still are exploited for new discoveries in order to prevent the surfacing of “superbugs.” Antimicrobial chemotherapy has diminished the threat of infectious diseases to some extent. To avoid the indiscriminate use of antibiotics, the new ones licensed for use have decreased with time. Additionally, in vitro assays and genomics for anti-infectives are novel approaches used in resolving the issues of microbial resistance. Proper use of drugs can keep it under check and minimize the risk of MDR spread.
Collapse
|
60
|
Cancemi P, Buttacavoli M, D'Anna F, Feo S, Fontana RM, Noto R, Sutera A, Vitale P, Gallo G. The effects of structural changes on the anti-microbial and anti-proliferative activities of diimidazolium salts. NEW J CHEM 2017. [DOI: 10.1039/c6nj03904a] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Anti-microbial and anti-proliferative activities of diimidazolium salts have been analyzed as a function of the main changes in their structural features.
Collapse
Affiliation(s)
- Patrizia Cancemi
- Dipartimento STEBICEF
- Sezione di Biologia Cellulare
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Miriam Buttacavoli
- Dipartimento STEBICEF
- Sezione di Biologia Cellulare
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Francesca D'Anna
- Dipartimento STEBICEF
- Sezione di Chimica
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Salvatore Feo
- Dipartimento STEBICEF
- Sezione di Biologia Cellulare
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Rosa Maria Fontana
- Dipartimento STEBICEF
- Sezione di Biologia Cellulare
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Renato Noto
- Dipartimento STEBICEF
- Sezione di Chimica
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Alberto Sutera
- Dipartimento STEBICEF
- Sezione di Biologia Cellulare
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Paola Vitale
- Dipartimento STEBICEF
- Sezione di Chimica
- Viale delle Scienze
- 90128 Palermo
- Italy
| | - Giuseppe Gallo
- Dipartimento STEBICEF
- Sezione di Biologia Cellulare
- Viale delle Scienze
- 90128 Palermo
- Italy
| |
Collapse
|
61
|
Shokri D, Soleimani-Delfan A, Fatemi SM. Assessment of phage cocktails with extended host range activity against antibiotic resistant strains of Pseudomonas aeruginosa. ACTA ACUST UNITED AC 2016. [DOI: 10.1007/s00580-016-2394-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
62
|
Dutta D, Mishra S. Loss of Catalytic Activity in the E134D, H67A, and H349A Mutants of DapE: Mechanistic Analysis with QM/MM Investigation. J Phys Chem B 2016; 120:11654-11664. [DOI: 10.1021/acs.jpcb.6b07446] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Debodyuti Dutta
- Department of Chemistry, Indian Institute of Technology Kharagpur, Kharagpur 721302, India
| | - Sabyashachi Mishra
- Department of Chemistry, Indian Institute of Technology Kharagpur, Kharagpur 721302, India
| |
Collapse
|
63
|
Riquelme C, Enes Dapkevicius MDL, Miller AZ, Charlop-Powers Z, Brady S, Mason C, Cheeptham N. Biotechnological potential of Actinobacteria from Canadian and Azorean volcanic caves. Appl Microbiol Biotechnol 2016; 101:843-857. [DOI: 10.1007/s00253-016-7932-7] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2016] [Revised: 09/07/2016] [Accepted: 10/12/2016] [Indexed: 12/26/2022]
|
64
|
Material informatics driven design and experimental validation of lead titanate as an aqueous solar photocathode. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.md.2017.04.001] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
|
65
|
Al-Amoudi S, Essack M, Simões MF, Bougouffa S, Soloviev I, Archer JAC, Lafi FF, Bajic VB. Bioprospecting Red Sea Coastal Ecosystems for Culturable Microorganisms and Their Antimicrobial Potential. Mar Drugs 2016; 14:md14090165. [PMID: 27626430 PMCID: PMC5039536 DOI: 10.3390/md14090165] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2016] [Revised: 08/10/2016] [Accepted: 08/10/2016] [Indexed: 01/19/2023] Open
Abstract
Microorganisms that inhabit unchartered unique soil such as in the highly saline and hot Red Sea lagoons on the Saudi Arabian coastline, represent untapped sources of potentially new bioactive compounds. In this study, a culture-dependent approach was applied to three types of sediments: mangrove mud (MN), microbial mat (MM), and barren soil (BS), collected from Rabigh harbor lagoon (RHL) and Al-Kharrar lagoon (AKL). The isolated bacteria were evaluated for their potential to produce bioactive compounds. The phylogenetic characterization of 251 bacterial isolates based on the 16S rRNA gene sequencing, supported their assignment to five different phyla: Proteobacteria, Firmicutes, Actinobacteria, Bacteroidetes, and Planctomycetes. Fifteen putative novel species were identified based on a 16S rRNA gene sequence similarity to other strain sequences in the NCBI database, being ≤98%. We demonstrate that 49 of the 251 isolates exhibit the potential to produce antimicrobial compounds. Additionally, at least one type of biosynthetic gene sequence, responsible for the synthesis of secondary metabolites, was recovered from 25 of the 49 isolates. Moreover, 10 of the isolates had a growth inhibition effect towards Staphylococcus aureus, Salmonella typhimurium and Pseudomonas syringae. We report the previously unknown antimicrobial activity of B. borstelensis, P. dendritiformis and M. salipaludis against all three indicator pathogens. Our study demonstrates the evidence of diverse cultured microbes associated with the Red Sea harbor/lagoon environments and their potential to produce antimicrobial compounds.
Collapse
Affiliation(s)
- Soha Al-Amoudi
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| | - Magbubah Essack
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| | - Marta F Simões
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
- Biology Department, Edge Hill University, St. Helens Road, Lancashire, Ormskirk L39 4QP, UK.
| | - Salim Bougouffa
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| | - Irina Soloviev
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| | - John A C Archer
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| | - Feras F Lafi
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| | - Vladimir B Bajic
- King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.
| |
Collapse
|
66
|
Gao MY, Qi H, Li JS, Zhang H, Zhang J, Wang JD, Xiang WS. A new polysubstituted cyclopentene derivative from Streptomyces sp. HS-NF-1046. J Antibiot (Tokyo) 2016; 70:216-218. [PMID: 27599764 DOI: 10.1038/ja.2016.111] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2016] [Revised: 07/07/2016] [Accepted: 08/05/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Mei-Yue Gao
- Life Science and Biotechnology Research Center, School of Life Science, Northeast Agricultural University, Harbin, China
| | - Huan Qi
- Department of New Drug Screening, Zhejiang Hisun Pharmaceutical, Taizhou, China
| | - Jian-Song Li
- Life Science and Biotechnology Research Center, School of Life Science, Northeast Agricultural University, Harbin, China
| | - Hui Zhang
- Department of New Drug Screening, Zhejiang Hisun Pharmaceutical, Taizhou, China
| | - Ji Zhang
- Life Science and Biotechnology Research Center, School of Life Science, Northeast Agricultural University, Harbin, China
| | - Ji-Dong Wang
- Department of New Drug Screening, Zhejiang Hisun Pharmaceutical, Taizhou, China
| | - Wen-Sheng Xiang
- Life Science and Biotechnology Research Center, School of Life Science, Northeast Agricultural University, Harbin, China
| |
Collapse
|
67
|
Mapping Protein-Protein Interactions of the Resistance-Related Bacterial Zeta Toxin-Epsilon Antitoxin Complex (ε₂ζ₂) with High Affinity Peptide Ligands Using Fluorescence Polarization. Toxins (Basel) 2016; 8:toxins8070222. [PMID: 27438853 PMCID: PMC4963854 DOI: 10.3390/toxins8070222] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2016] [Revised: 06/29/2016] [Accepted: 07/05/2016] [Indexed: 01/01/2023] Open
Abstract
Toxin–antitoxin systems constitute a native survival strategy of pathogenic bacteria and thus are potential targets of antibiotic drugs. Here, we target the Zeta–Epsilon toxin–antitoxin system, which is responsible for the stable maintenance of certain multiresistance plasmids in Gram-positive bacteria. Peptide ligands were designed on the basis of the ε2ζ2 complex. Three α helices of Zeta forming the protein–protein interaction (PPI) site were selected and peptides were designed conserving the residues interacting with Epsilon antitoxin while substituting residues binding intramolecularly to other parts of Zeta. Designed peptides were synthesized with an N-terminal fluoresceinyl-carboxy-residue for binding assays and provided active ligands, which were used to define the hot spots of the ε2ζ2 complex. Further shortening and modification of the binding peptides provided ligands with affinities <100 nM, allowing us to determine the most relevant PPIs and implement a robust competition binding assay.
Collapse
|
68
|
López-García MT, Rioseras B, Yagüe P, Álvarez JR, Manteca Á. Cell immobilization of Streptomyces coelicolor : effect on differentiation and actinorhodin production. Int Microbiol 2016; 17:75-80. [PMID: 26418851 DOI: 10.2436/20.1501.01.209] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2014] [Accepted: 04/24/2014] [Indexed: 12/22/2022]
Abstract
Streptomycetes are mycelium-forming bacteria that produce two thirds of the clinically relevant secondary metabolites. Despite the fact that secondary metabolite production is activated at specific developmental stages of the Streptomyces spp. life cycle, different streptomycetes show different behaviors, and fermentation conditions need to be optimized for each specific strain and secondary metabolite. Cell-encapsulation constitutes an interesting alternative to classical fermentations, which was demonstrated to be useful in Streptomyces, but development under these conditions remained unexplored. In this work, the influence of cell-encapsulation in hyphae differentiation and actinorhodin production was explored in the model Streptomyces coelicolor strain. Encapsulation led to a delay in growth and to a reduction of mycelium density and cell death. The high proportion of viable hyphae duplicated extracellular actinorhodin production in the encapsulated cultures with respect to the non-encapsulated ones.
Collapse
Affiliation(s)
- María Teresa López-García
- Microbiology Section, Department of Functional Biology and IUOPA, School of Medicine, University of Oviedo, Spain
| | - Beatriz Rioseras
- Microbiology Section, Department of Functional Biology and IUOPA, School of Medicine, University of Oviedo, Spain
| | - Paula Yagüe
- Microbiology Section, Department of Functional Biology and IUOPA, School of Medicine, University of Oviedo, Spain
| | - José Ramón Álvarez
- Department of Chemical Engineering and Environmental Technology, University of Oviedo, Spain
| | - Ángel Manteca
- Microbiology Section, Department of Functional Biology and IUOPA, School of Medicine, University of Oviedo, Spain
| |
Collapse
|
69
|
Investigation of the Chemical Composition and Different Effects of a Rumex dentatus Methanol Extract Against Drug Resistant Pseudomonas aeruginosa Isolates. IRANIAN RED CRESCENT MEDICAL JOURNAL 2016. [DOI: 10.5812/ircmj.27064] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
|
70
|
Beuzer P, La Clair JJ, Cang H. Color-Coded Super-Resolution Small-Molecule Imaging. Chembiochem 2016; 17:999-1003. [PMID: 26994590 PMCID: PMC5291120 DOI: 10.1002/cbic.201600013] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2016] [Indexed: 12/15/2022]
Abstract
Although the development of super-resolution microscopy dates back to 1994, its applications have been primarily focused on visualizing cellular structures and targets, including proteins, DNA and sugars. We now report on a system that allows both monitoring of the localization of exogenous small molecules in live cells at low resolution and subsequent super-resolution imaging by using stochastic optical reconstruction microscopy (STORM) on fixed cells. This represents a powerful new tool to understand the dynamics of subcellular trafficking associated with the mode and mechanism of action of exogenous small molecules.
Collapse
Affiliation(s)
- Paolo Beuzer
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Sciences, 10010 N Torrey Pines Road, La Jolla, CA, 92037, USA
| | - James J La Clair
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Sciences, 10010 N Torrey Pines Road, La Jolla, CA, 92037, USA.
- Xenobe Research Institute, P. O. Box 3052, San Diego, CA, 92163-1052, USA.
| | - Hu Cang
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Sciences, 10010 N Torrey Pines Road, La Jolla, CA, 92037, USA.
| |
Collapse
|
71
|
Shokri D, Rabbani Khorasgani M, Zaghian S, Fatemi SM, Mohkam M, Ghasemi Y, Taheri-Kafrani A. Determination of Acquired Resistance Profiles of Pseudomonas aeruginosa Isolates and Characterization of an Effective Bacteriocin-Like Inhibitory Substance (BLIS) Against These Isolates. Jundishapur J Microbiol 2016; 9:e32795. [PMID: 27800131 PMCID: PMC5080677 DOI: 10.5812/jjm.32795] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2015] [Revised: 12/25/2015] [Accepted: 04/18/2016] [Indexed: 01/29/2023] Open
Abstract
Background The emergence of pan-drug resistant strains (PDR) of Pseudomonas aeruginosa has led to renewed efforts to identify alternative agents, such as bacteriocins and bacteriocin-like inhibitory substances (BLISs). Objectives The aims of this study were to determine the acquired resistance profiles of multidrug-resistant (MDR), extensively drug-resistant (XDR), and PDR P. aeruginosa isolates based on the revised definitions of the CDC and ECDC and to screen and characterize effective BLISs against these isolates. Patients and Materials In a cross-sectional study, 96 P. aeruginosa strains were isolated during a 12-month period. The resistance profiles of these isolates were determined as MDR, XDR, and PDR, and the data were analyzed using WHONET5.6 software. A BLIS against the P. aeruginosa strains was characterized based on its physicochemical properties, size, growth curves, and production profiles. Results Among the 96 isolates of P. aeruginosa, 2 (2.1%), 94 (97.9%), and 63 (65.6%) were non-MDR, MDR, and XDR, respectively, and 1 (1.1%) was PDR. The most effective antibiotics against these isolates were polymyxins and fosfomycin. A BLIS isolated from the P. aeruginosa DSH22 strain had potent activity against 92 (95.8%) of the 96 isolates. The BLIS was heat stable, (up to 100°C for 10 min), UV stable, and active within a pH range of 3 - 9. The activity of BLIS disappeared when treated with trypsin, proteinase K, and pepsin, indicating its proteinous nature. Based on its size (25 kDa), the BLIS may belong to the large colicin-like bacteriocin family. BLIS production started in the midexponential phase of growth, and the maximum level (2700 AU/mL) occurred in the late-stationary phase after 25 hours of incubation at 30°C. Conclusions This BLIS with broad-spectrum activity may be a potential agent for the treatment or control of drug-resistant strains of P. aeruginosa infection.
Collapse
Affiliation(s)
- Dariush Shokri
- Department of Biology, Faculty of Sciences, University of Isfahan, Isfahan, IR Iran
| | - Mohammad Rabbani Khorasgani
- Department of Biology, Faculty of Sciences, University of Isfahan, Isfahan, IR Iran
- Corresponding author: Mohammad Rabbani Khorasgani, Department of Biology, Faculty of Sciences, University of Isfahan, Isfahan, IR Iran. Tel: +98-03137932480, Fax: +98-3137932456, E-mail:
| | - Saeideh Zaghian
- Nanobiotechnology Department, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, IR Iran
| | - Seyed Masih Fatemi
- Department of Microbiology, Faculty of Basic Sciences, Shahrekord Branch, Islamic Azad University, Shahrekord, IR Iran
| | - Milad Mohkam
- Department of Pharmaceutical Biotechnology, Pharmaceutical Sciences Research Center, Faculty of Pharmacy, Shiraz University of Medical Sciences, Shiraz, IR Iran
| | - Younes Ghasemi
- Department of Pharmaceutical Biotechnology, Pharmaceutical Sciences Research Center, Faculty of Pharmacy, Shiraz University of Medical Sciences, Shiraz, IR Iran
| | - Asghar Taheri-Kafrani
- Department of Biotechnology, Faculty of Advanced Sciences and Technologies, University of Isfahan, Isfahan, IR Iran
| |
Collapse
|
72
|
Krzyżanowska DM, Ossowicki A, Rajewska M, Maciąg T, Jabłońska M, Obuchowski M, Heeb S, Jafra S. When Genome-Based Approach Meets the "Old but Good": Revealing Genes Involved in the Antibacterial Activity of Pseudomonas sp. P482 against Soft Rot Pathogens. Front Microbiol 2016; 7:782. [PMID: 27303376 PMCID: PMC4880745 DOI: 10.3389/fmicb.2016.00782] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2016] [Accepted: 05/09/2016] [Indexed: 11/13/2022] Open
Abstract
Dickeya solani and Pectobacterium carotovorum subsp. brasiliense are recently established species of bacterial plant pathogens causing black leg and soft rot of many vegetables and ornamental plants. Pseudomonas sp. strain P482 inhibits the growth of these pathogens, a desired trait considering the limited measures to combat these diseases. In this study, we determined the genetic background of the antibacterial activity of P482, and established the phylogenetic position of this strain. Pseudomonas sp. P482 was classified as Pseudomonas donghuensis. Genome mining revealed that the P482 genome does not contain genes determining the synthesis of known antimicrobials. However, the ClusterFinder algorithm, designed to detect atypical or novel classes of secondary metabolite gene clusters, predicted 18 such clusters in the genome. Screening of a Tn5 mutant library yielded an antimicrobial negative transposon mutant. The transposon insertion was located in a gene encoding an HpcH/HpaI aldolase/citrate lyase family protein. This gene is located in a hypothetical cluster predicted by the ClusterFinder, together with the downstream homologs of four nfs genes, that confer production of a non-fluorescent siderophore by P. donghuensis HYST. Site-directed inactivation of the HpcH/HpaI aldolase gene, the adjacent short chain dehydrogenase gene, as well as a homolog of an essential nfs cluster gene, all abolished the antimicrobial activity of the P482, suggesting their involvement in a common biosynthesis pathway. However, none of the mutants showed a decreased siderophore yield, neither was the antimicrobial activity of the wild type P482 compromised by high iron bioavailability. A genomic region comprising the nfs cluster and three upstream genes is involved in the antibacterial activity of P. donghuensis P482 against D. solani and P. carotovorum subsp. brasiliense. The genes studied are unique to the two known P. donghuensis strains. This study illustrates that mining of microbial genomes is a powerful approach for predictingthe presence of novel secondary-metabolite encoding genes especially when coupled with transposon mutagenesis.
Collapse
Affiliation(s)
- Dorota M Krzyżanowska
- Laboratory of Biological Plant Protection, Department of Biotechnology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk Gdansk, Poland
| | - Adam Ossowicki
- Laboratory of Biological Plant Protection, Department of Biotechnology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk Gdansk, Poland
| | - Magdalena Rajewska
- Laboratory of Biological Plant Protection, Department of Biotechnology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk Gdansk, Poland
| | - Tomasz Maciąg
- Laboratory of Biological Plant Protection, Department of Biotechnology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk Gdansk, Poland
| | - Magdalena Jabłońska
- Laboratory of Biological Plant Protection, Department of Biotechnology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk Gdansk, Poland
| | - Michał Obuchowski
- Laboratory of Molecular Bacteriology, Department of Medical Biotechnology, Intercollegiate Faculty of Biotechnology University of Gdansk and Medical University of Gdansk, Medical University of Gdansk Gdansk, Poland
| | - Stephan Heeb
- School of Life Sciences, Faculty of Medicine and Health Sciences, University of Nottingham Nottingham, UK
| | - Sylwia Jafra
- Laboratory of Biological Plant Protection, Department of Biotechnology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk Gdansk, Poland
| |
Collapse
|
73
|
|
74
|
Hunt T, Kaplan N, Hafkin B. Safety, tolerability and pharmacokinetics of multiple oral doses of AFN-1252 administered as immediate release (IR) tablets in healthy subjects. J Chemother 2016; 28:164-71. [DOI: 10.1179/1973947815y.0000000075] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
|
75
|
Zhang M, Kong X, Zheng J, Wan JB, Wang Y, Hu Y, Shao R. Research and development of antibiotics: insights from patents and citation network. Expert Opin Ther Pat 2016; 26:617-27. [PMID: 26986226 DOI: 10.1517/13543776.2016.1167877] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
INTRODUCTION Bacterial resistance to antibiotics develops at an alarming rate and leads to the increasing morbidity and health-care costs in recent years. However, the global research and development (R&D) of antibiotics has fallen behind the emergence and spread of bacterial resistance and the world is heading towards a 'post-antibiotic era'. In this context, systematic understanding of the technology landscape and evolving process of antibiotic R&D may help to provide insights for discovering future antibiotics more rationally. AREAS COVERED Patents and patent citations are broadly believed to be powerful tools in representing the technology advances and capturing technology flows. In all, 707 U.S. patents related to antibiotic R&D are collected and analyzed. Furthermore, patent citations are visualized by a network-based approach, while the inter-relationship between patented technologies on antibiotics is further revealed. EXPERT OPINION The current dry pipeline of antibiotic development requires substantial awareness and political support. It is essential to build an attractive and supportive environment for investment. Thus, a new antibiotic business model is needed to chase the balance between the market-oriented investment and public health goals. Additionally, drug development targeting Gram-negative bacteria, especially resistant Gram-negative bacteria, demands attentions from stakeholders because of their unmet medical needs.
Collapse
Affiliation(s)
- Meng Zhang
- a School of International Pharmaceutical Business , China Pharmaceutical University , Nanjing , Jiangsu , China
| | - Xiangjun Kong
- b Institute of Chinese Medical Sciences, State Key Laboratory of Quality Research in Chinese Medicine , University of Macau , Macao , China
| | - Jun Zheng
- c Faculty of Health Sciences , University of Macau , Macao , China
| | - Jian-Bo Wan
- b Institute of Chinese Medical Sciences, State Key Laboratory of Quality Research in Chinese Medicine , University of Macau , Macao , China
| | - Yitao Wang
- b Institute of Chinese Medical Sciences, State Key Laboratory of Quality Research in Chinese Medicine , University of Macau , Macao , China
| | - Yuanjia Hu
- b Institute of Chinese Medical Sciences, State Key Laboratory of Quality Research in Chinese Medicine , University of Macau , Macao , China
| | - Rong Shao
- a School of International Pharmaceutical Business , China Pharmaceutical University , Nanjing , Jiangsu , China
| |
Collapse
|
76
|
Xie Z, Zhou L, Guo L, Yang X, Qu G, Wu C, Zhang S. Grisemycin, a Bridged Angucyclinone with a Methylsulfinyl Moiety from a Marine-Derived Streptomyces sp. Org Lett 2016; 18:1402-5. [DOI: 10.1021/acs.orglett.6b00332] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Zeping Xie
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| | - Ling Zhou
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| | - Lin Guo
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| | - Xiaoping Yang
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| | - Guiwu Qu
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| | - Changjing Wu
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| | - Shumin Zhang
- The Key Laboratory of Traditional Chinese Medicine Prescription Effect
and Clinical Evaluation of State Administration of Traditional Chinese
Medicine, School of Pharmacy, ‡School of Enology, and §School of Gerontology, Binzhou Medical University, Yantai 264003, China
| |
Collapse
|
77
|
Salcedo RG, Olano C, Gómez C, Fernández R, Braña AF, Méndez C, de la Calle F, Salas JA. Characterization and engineering of the biosynthesis gene cluster for antitumor macrolides PM100117 and PM100118 from a marine actinobacteria: generation of a novel improved derivative. Microb Cell Fact 2016; 15:44. [PMID: 26905289 PMCID: PMC4763440 DOI: 10.1186/s12934-016-0443-5] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2015] [Accepted: 02/11/2016] [Indexed: 12/28/2022] Open
Abstract
BACKGROUND PM100117 and PM100118 are glycosylated polyketides with remarkable antitumor activity, which derive from the marine symbiotic actinobacteria Streptomyces caniferus GUA-06-05-006A. Structurally, PM100117 and PM100118 are composed of a macrocyclic lactone, three deoxysugar units and a naphthoquinone (NQ) chromophore that shows a clear structural similarity to menaquinone. RESULTS Whole-genome sequencing of S. caniferus GUA-06-05-006A has enabled the identification of PM100117 and PM100118 biosynthesis gene cluster, which has been characterized on the basis of bioinformatics and genetic engineering data. The product of four genes shows high identity to proteins involved in the biosynthesis of menaquinone via futalosine. Deletion of one of these genes led to a decay in PM100117 and PM100118 production, and to the accumulation of several derivatives lacking NQ. Likewise, five additional genes have been genetically characterized to be involved in the biosynthesis of this moiety. Moreover, the generation of a mutant in a gene coding for a putative cytochrome P450 has led to the production of PM100117 and PM100118 structural analogues showing an enhanced in vitro cytotoxic activity relative to the parental products. CONCLUSIONS Although a number of compounds structurally related to PM100117 and PM100118 has been discovered, this is, to our knowledge, the first insight reported into their biosynthesis. The structural resemblance of the NQ moiety to menaquinone, and the presence in the cluster of four putative menaquinone biosynthetic genes, suggests a connection between the biosynthesis pathways of both compounds. The availability of the PM100117 and PM100118 biosynthetic gene cluster will surely pave a way to the combinatorial engineering of more derivatives.
Collapse
Affiliation(s)
- Raúl García Salcedo
- Departamento de Biología Funcional e Instituto Universitario de Oncología del Principado de Asturias (I.U.O.P.A), Universidad de Oviedo, 33006, Oviedo, Asturias, Spain.
| | - Carlos Olano
- Departamento de Biología Funcional e Instituto Universitario de Oncología del Principado de Asturias (I.U.O.P.A), Universidad de Oviedo, 33006, Oviedo, Asturias, Spain.
| | - Cristina Gómez
- Departamento de Biología Funcional e Instituto Universitario de Oncología del Principado de Asturias (I.U.O.P.A), Universidad de Oviedo, 33006, Oviedo, Asturias, Spain.
| | - Rogelio Fernández
- Drug Discovery Area, PharmaMar SA, Avda. de los Reyes 1, Colmenar Viejo, 28770, Madrid, Spain.
| | - Alfredo F Braña
- Departamento de Biología Funcional e Instituto Universitario de Oncología del Principado de Asturias (I.U.O.P.A), Universidad de Oviedo, 33006, Oviedo, Asturias, Spain.
| | - Carmen Méndez
- Departamento de Biología Funcional e Instituto Universitario de Oncología del Principado de Asturias (I.U.O.P.A), Universidad de Oviedo, 33006, Oviedo, Asturias, Spain.
| | - Fernando de la Calle
- Drug Discovery Area, PharmaMar SA, Avda. de los Reyes 1, Colmenar Viejo, 28770, Madrid, Spain.
| | - José A Salas
- Departamento de Biología Funcional e Instituto Universitario de Oncología del Principado de Asturias (I.U.O.P.A), Universidad de Oviedo, 33006, Oviedo, Asturias, Spain.
| |
Collapse
|
78
|
Assembly and clustering of natural antibiotics guides target identification. Nat Chem Biol 2016; 12:233-9. [PMID: 26829473 DOI: 10.1038/nchembio.2018] [Citation(s) in RCA: 72] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2015] [Accepted: 12/09/2015] [Indexed: 12/25/2022]
Abstract
Antibiotics are essential for numerous medical procedures, including the treatment of bacterial infections, but their widespread use has led to the accumulation of resistance, prompting calls for the discovery of antibacterial agents with new targets. A majority of clinically approved antibacterial scaffolds are derived from microbial natural products, but these valuable molecules are not well annotated or organized, limiting the efficacy of modern informatic analyses. Here, we provide a comprehensive resource defining the targets, chemical origins and families of the natural antibacterial collective through a retrobiosynthetic algorithm. From this we also detail the directed mining of biosynthetic scaffolds and resistance determinants to reveal structures with a high likelihood of having previously unknown modes of action. Implementing this pipeline led to investigations of the telomycin family of natural products from Streptomyces canus, revealing that these bactericidal molecules possess a new antibacterial mode of action dependent on the bacterial phospholipid cardiolipin.
Collapse
|
79
|
Scaffaro R, Lopresti F, Sutera A, Botta L, Fontana RM, Puglia AM, Gallo G. Effect of PCL/PEG-Based Membranes on Actinorhodin Production in Streptomyces coelicolor
Cultivations. Macromol Biosci 2016; 16:686-93. [DOI: 10.1002/mabi.201500391] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2015] [Revised: 12/15/2015] [Indexed: 02/07/2023]
Affiliation(s)
- Roberto Scaffaro
- Dipartimento di Ingegneria Civile; University of Palermo; Ambientale, Aerospaziale, dei Materiali Viale delle Scienze Ed. 6 90128 Palermo Italy
| | - Francesco Lopresti
- Dipartimento di Ingegneria Civile; University of Palermo; Ambientale, Aerospaziale, dei Materiali Viale delle Scienze Ed. 6 90128 Palermo Italy
| | - Alberto Sutera
- Dipartimento di Scienze e Tecnologie Biologiche; University of Palermo; Chimiche e Farmaceutiche; Viale delle Scienze Ed. 16 90128 Palermo Italy
| | - Luigi Botta
- Dipartimento di Ingegneria Civile; University of Palermo; Ambientale, Aerospaziale, dei Materiali Viale delle Scienze Ed. 6 90128 Palermo Italy
| | - Rosa Maria Fontana
- Dipartimento di Scienze e Tecnologie Biologiche; University of Palermo; Chimiche e Farmaceutiche; Viale delle Scienze Ed. 16 90128 Palermo Italy
| | - Anna Maria Puglia
- Dipartimento di Scienze e Tecnologie Biologiche; University of Palermo; Chimiche e Farmaceutiche; Viale delle Scienze Ed. 16 90128 Palermo Italy
| | - Giuseppe Gallo
- Dipartimento di Scienze e Tecnologie Biologiche; University of Palermo; Chimiche e Farmaceutiche; Viale delle Scienze Ed. 16 90128 Palermo Italy
| |
Collapse
|
80
|
Dutta D, Mishra S. Structural and mechanistic insight into substrate binding from the conformational dynamics in apo and substrate-bound DapE enzyme. Phys Chem Chem Phys 2016; 18:1671-80. [DOI: 10.1039/c5cp06024a] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Conformational dynamics induced by substrate binding in DapE enzyme.
Collapse
Affiliation(s)
- Debodyuti Dutta
- Department of Chemistry
- Indian Institute of Technology Kharagpur
- Kharagpur
- India
| | - Sabyashachi Mishra
- Department of Chemistry
- Indian Institute of Technology Kharagpur
- Kharagpur
- India
| |
Collapse
|
81
|
Qiu HY, Wang PF, Wang ZZ, Luo YL, Hu DQ, Qi JL, Lu GH, Pang YJ, Yang RW, Zhu HL, Wang XM, Yang YH. Shikonin derivatives as inhibitors of tyrosyl-tRNA synthetase: design, synthesis and biological evaluation. RSC Adv 2016. [DOI: 10.1039/c6ra17742e] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A series of novel tyrosyl-tRNA synthetase inhibitors was designed and synthesized as anti-bacteria agents based on natural product shikonin and in silico scaffold modification strategy.
Collapse
|
82
|
Walker MC, van der Donk WA. The many roles of glutamate in metabolism. J Ind Microbiol Biotechnol 2015; 43:419-30. [PMID: 26323613 DOI: 10.1007/s10295-015-1665-y] [Citation(s) in RCA: 85] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2015] [Accepted: 07/25/2015] [Indexed: 12/20/2022]
Abstract
The amino acid glutamate is a major metabolic hub in many organisms and as such is involved in diverse processes in addition to its role in protein synthesis. Nitrogen assimilation, nucleotide, amino acid, and cofactor biosynthesis, as well as secondary natural product formation all utilize glutamate in some manner. Glutamate also plays a role in the catabolism of certain amines. Understanding glutamate's role in these various processes can aid in genome mining for novel metabolic pathways or the engineering of pathways for bioremediation or chemical production of valuable compounds.
Collapse
Affiliation(s)
- Mark C Walker
- Department of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, 600 South Mathews Avenue, Urbana, IL, 61801, USA
| | - Wilfred A van der Donk
- Department of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, 600 South Mathews Avenue, Urbana, IL, 61801, USA.
| |
Collapse
|
83
|
Nguyen TM, Kim J. Streptomyces olivicoloratus sp. nov., an antibiotic-producing bacterium isolated from soil. Int J Syst Evol Microbiol 2015; 65:3262-3270. [PMID: 26296874 DOI: 10.1099/ijsem.0.000404] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain T13T, isolated from forest soil in Jeollabuk-do, South Korea, exhibited antibiotic production on yeast extract-malt extract-glucose (YMG) medium containing magnesium chloride as a trace mineral, and inhibited the growth of Bacillus subtilis, Staphylococcus aureus, Pseudomonas aeruginosa, Staphylococcus epidermidis, Paenibacillus larvae, Escherichia coli, Candida albicans and Aspergillus niger. Growth occurred at 15-45 °C, pH 4-11 and in the presence of up to 2 % (w/v) NaCl. Biochemical analyses indicated that the predominant menaquinones produced by this strain were MK-9(H6) and MK-9(H8); small amounts of MK-10(H2) and MK-10(H4) were also detected. The polar lipid profile comprised diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine, and the cell-wall peptidoglycan contained ll-diaminopimelic acid, glutamic acid, alanine and glycine. Whole-cell hydrolysates contained glucose, galactose, ribose and rhamnose. The fatty-acid profile of strain T13T was made up predominantly of iso- and anteiso-branched fatty acids. Genetic analyses demonstrated that strain T13T is closely related to Streptomyces gramineus JR-43T (98.29 % 16S rRNA gene sequence similarity), S. graminisoli JR-19T (97.99 %), S. rhizophilus JR-41T (97.86 %), S. longwoodensis LMG 20096T (97.84 %), S. graminifolii JL-22T (97.79 %) and S. yaanensis Z4T (97.56 %), and DNA-DNA hybridization yielded relatedness values of 35.27-43.42 % when T13T was compared to related strains. The results of morphological, chemotaxonomic, phylogenetic and phenotypic analyses confirm that this strain represents a novel species of the genus Streptomyces, for which the name Streptomyces olivicoloratus sp. nov. is proposed. The type strain is T13T ( = KEMB 9005-210T = KACC 18227T = NBRC 110901T).
Collapse
Affiliation(s)
- Tuan Manh Nguyen
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon, Gyeonggi-Do 443-760, Republic of Korea
| | - Jaisoo Kim
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon, Gyeonggi-Do 443-760, Republic of Korea
| |
Collapse
|
84
|
Punina NV, Makridakis NM, Remnev MA, Topunov AF. Whole-genome sequencing targets drug-resistant bacterial infections. Hum Genomics 2015; 9:19. [PMID: 26243131 PMCID: PMC4525730 DOI: 10.1186/s40246-015-0037-z] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2015] [Accepted: 07/03/2015] [Indexed: 01/07/2023] Open
Abstract
During the past two decades, the technological progress of whole-genome sequencing (WGS) had changed the fields of Environmental Microbiology and Biotechnology, and, currently, is changing the underlying principles, approaches, and fundamentals of Public Health, Epidemiology, Health Economics, and national productivity. Today’s WGS technologies are able to compete with conventional techniques in cost, speed, accuracy, and resolution for day-to-day control of infectious diseases and outbreaks in clinical laboratories and in long-term epidemiological investigations. WGS gives rise to an exciting future direction for personalized Genomic Epidemiology. One of the most vital and growing public health problems is the emerging and re-emerging of multidrug-resistant (MDR) bacterial infections in the communities and healthcare settings, reinforced by a decline in antimicrobial drug discovery. In recent years, retrospective analysis provided by WGS has had a great impact on the identification and tracking of MDR microorganisms in hospitals and communities. The obtained genomic data are also important for developing novel easy-to-use diagnostic assays for clinics, as well as for antibiotic and therapeutic development at both the personal and population levels. At present, this technology has been successfully applied as an addendum to the real-time diagnostic methods currently used in clinical laboratories. However, the significance of WGS for public health may increase if: (a) unified and user-friendly bioinformatics toolsets for easy data interpretation and management are established, and (b) standards for data validation and verification are developed. Herein, we review the current and future impact of this technology on diagnosis, prevention, treatment, and control of MDR infectious bacteria in clinics and on the global scale.
Collapse
Affiliation(s)
- N V Punina
- Bach Institute of Biochemistry, Russian Academy of Science, Moscow, 119071, Russia.
| | - N M Makridakis
- Tulane University School of Public Health and Tropical Medicine, New Orleans, LA, 70112, USA
| | - M A Remnev
- The Federal State Unitary Enterprise All-Russia Research Institute of Automatics, Moscow, 127055, Russia
| | - A F Topunov
- Bach Institute of Biochemistry, Russian Academy of Science, Moscow, 119071, Russia
| |
Collapse
|
85
|
A novel detergent-stable solvent-tolerant serine thiol alkaline protease from Streptomyces koyangensis TN650. Int J Biol Macromol 2015; 79:871-82. [DOI: 10.1016/j.ijbiomac.2015.06.006] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2014] [Revised: 06/02/2015] [Accepted: 06/03/2015] [Indexed: 11/22/2022]
|
86
|
Hoque J, Konai MM, Gonuguntla S, Manjunath GB, Samaddar S, Yarlagadda V, Haldar J. Membrane Active Small Molecules Show Selective Broad Spectrum Antibacterial Activity with No Detectable Resistance and Eradicate Biofilms. J Med Chem 2015; 58:5486-500. [DOI: 10.1021/acs.jmedchem.5b00443] [Citation(s) in RCA: 65] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Jiaul Hoque
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| | - Mohini M. Konai
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| | - Spandhana Gonuguntla
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| | - Goutham B. Manjunath
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| | - Sandip Samaddar
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| | - Venkateswarlu Yarlagadda
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| | - Jayanta Haldar
- Chemical
Biology and Medicinal
Chemistry Laboratory, New Chemistry Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur, Bengaluru 560064, India
| |
Collapse
|
87
|
Sashidhara KV, Rao KB, Kushwaha P, Modukuri RK, Singh P, Soni I, Shukla PK, Chopra S, Pasupuleti M. Novel Chalcone-Thiazole Hybrids as Potent Inhibitors of Drug Resistant Staphylococcus aureus. ACS Med Chem Lett 2015; 6:809-13. [PMID: 26191371 PMCID: PMC4499817 DOI: 10.1021/acsmedchemlett.5b00169] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2015] [Accepted: 05/29/2015] [Indexed: 11/29/2022] Open
Abstract
A series of novel hybrids possessing chalcone and thiazole moieties were synthesized and evaluated for their antibacterial activities. In general this class of hybrids exhibited potency against Staphylococcus aureus, and in particular, compound 27 exhibited potent inhibitory activity with respect to other synthesized hybrids. Furthermore, the hemolytic and toxicity data demonstrated that the compound 27 was nonhemolytic and nontoxic to mammalian cells. The in vivo studies utilizing a S. aureus septicemia model demonstrated that compound 27 was as potent as vancomycin. The results of antibacterial activities underscore the potential of this scaffold that can be utilized for developing a new class of novel antibiotics.
Collapse
Affiliation(s)
- Koneni V. Sashidhara
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - K. Bhaskara Rao
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - Pragati Kushwaha
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - Ram K. Modukuri
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - Pratiksha Singh
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - Isha Soni
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - P. K. Shukla
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - Sidharth Chopra
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| | - Mukesh Pasupuleti
- Medicinal & Process Chemistry Division and Division of Microbiology, CSIR−Central Drug Research Institute (CSIR-CDRI), Sector 10, Jankipuram extension,
Sitapur Road, Lucknow-226031, Uttar Pradesh, India
| |
Collapse
|
88
|
The development of antimicrobial peptides as an approach to prevention of antibiotic resistance. ACTA ACUST UNITED AC 2015. [DOI: 10.1097/mrm.0000000000000032] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
|
89
|
Brown JR, Livesay DR. Flexibility Correlation between Active Site Regions Is Conserved across Four AmpC β-Lactamase Enzymes. PLoS One 2015; 10:e0125832. [PMID: 26018804 PMCID: PMC4446314 DOI: 10.1371/journal.pone.0125832] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2014] [Accepted: 03/26/2015] [Indexed: 11/24/2022] Open
Abstract
β-lactamases are bacterial enzymes that confer resistance to β-lactam antibiotics, such as penicillins and cephalosporins. There are four classes of β-lactamase enzymes, each with characteristic sequence and structure properties. Enzymes from class A are the most common and have been well characterized across the family; however, less is known about how physicochemical properties vary across the C and D families. In this report, we compare the dynamical properties of four AmpC (class C) β-lactamases using our distance constraint model (DCM). The DCM reliably predicts thermodynamic and mechanical properties in an integrated way. As a consequence, quantitative stability/flexibility relationships (QSFR) can be determined and compared across the whole family. The DCM calculates a large number of QSFR metrics. Perhaps the most useful is the flexibility index (FI), which quantifies flexibility along the enzyme backbone. As typically observed in other systems, FI is well conserved across the four AmpC enzymes. Cooperativity correlation (CC), which quantifies intramolecular couplings within structure, is rarely conserved across protein families; however, it is in AmpC. In particular, the bulk of each structure is composed of a large rigid cluster, punctuated by three flexibly correlated regions located at the active site. These regions include several catalytic residues and the Ω-loop. This evolutionary conservation combined with active their site location strongly suggests that these coupled dynamical modes are important for proper functioning of the enzyme.
Collapse
Affiliation(s)
- Jenna R. Brown
- Department of Biological Sciences, University of North Carolina at Charlotte, Charlotte, NC, 28262, United States of America
| | - Dennis R. Livesay
- Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC, 28262, United States of America
- * E-mail:
| |
Collapse
|
90
|
Escano J, Smith L. Multipronged approach for engineering novel peptide analogues of existing lantibiotics. Expert Opin Drug Discov 2015; 10:857-70. [PMID: 26004576 DOI: 10.1517/17460441.2015.1049527] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
INTRODUCTION Lantibiotics are a class of ribosomally and post-translationally modified peptide antibiotics that are active against a broad spectrum of Gram-positive bacteria. Great efforts have been made to promote the production of these antibiotics, so that they can one day be used in our antimicrobial arsenal to combat multidrug-resistant bacterial infections. AREAS COVERED This review provides a synopsis of lantibiotic research aimed at furthering our understanding of the structural limitation of lantibiotics as well as identifying structural regions that can be modified to improve the bioactivity. In vivo, in vitro and chemical synthesis of lantibiotics has been useful for engineering novel variants with enhanced activities. These approaches have provided novel ways to further our understanding of lantibiotic function and have advanced the objective to develop lantibiotics for the treatment of infectious diseases. EXPERT OPINION Synthesis of lantibiotics with enhanced activities will lead to the discovery of new promising drug candidates that will have a long lasting impact on the treatment of Gram-positive infections. The current body of literature for producing structural variants of lantibiotics has been more of a 'proof-of-principle' approach and the application of these methods has not yet been fully utilized.
Collapse
Affiliation(s)
- Jerome Escano
- Texas A&M University, Department of Biological Sciences, College Station , TX 77843 , USA
| | | |
Collapse
|
91
|
Khan UA, Rahman H, Qasim M, Hussain A, Azizllah A, Murad W, Khan Z, Anees M, Adnan M. Alkanna tinctoria leaves extracts: a prospective remedy against multidrug resistant human pathogenic bacteria. BMC COMPLEMENTARY AND ALTERNATIVE MEDICINE 2015; 15:127. [PMID: 25902854 PMCID: PMC4410581 DOI: 10.1186/s12906-015-0646-z] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 11/06/2014] [Accepted: 04/13/2015] [Indexed: 05/28/2023]
Abstract
Background Plants are rich source of chemical compounds that are used to accomplish biological activity. Indigenously crude extracts of plants are widely used as herbal medicine for the treatment of infections by people of different ethnic groups. The present investigation was carried out to evaluate the biological potential of Alkanna tinctoria leaves extract from district Charsadda, Pakistan against multidrug resistant human pathogenic bacteria including Acinetobacter baumannii, Escherichia coli, Pseudomonas aeruginosa and Staphylococcus aureus. Methods Anti-multi-drug resistant bacterial activity of aqueous, chloroform, ethanol and hexane extracts of Alkanna tinctoria leaves were evaluated by well diffusion method. Minimum inhibitory concentrations (MICs) and minimum bactericidal concentrations (MBCs) of different extracts were determined. Moreover qualitative phytochemicals screening of the studied extracts was performed. Results All four selected bacteria including A. baumannii, E. coli, P. aeruginosa and S. aureus were categorized as multi-drug resistant (MDR) as they were found to be resistant to 13, 10, 19 and 22 antibiotics belonging to different groups respectively. All the four extract showed potential activity against S. aureus as compare to positive control antibiotic (Imipenem). Similarly among the four extracts of Alkanna tinctoria leaves, aqueous extract showed best activity against A. baumannii (10 ± 03 mm), P. aeruginosa (12 ± 0.5 mm), and S. aureus (14 ± 0.5 mm) as compare to Imipenem. The MICs and MBCs results also showed quantitative concentration of plant extracts to inhibit or kill MDR bacteria. When phytochemicals analysis was performed it was observed that aqueous and ethanol extracts showed phytochemicals with large number as well as volume, especially Alkaloides, Flavonoides and Charbohydrates. Conclusion The undertaken study demonstrated that all the four extracts of Alkanna tinctoria leaves exhibited considerable antibacterial activity against MDR isolates. Finding from the current study will be helpful for further elucidation of lead molecules from Alkanna tinctoria leaves for future therapeutic use against MDR pathogens.
Collapse
|
92
|
Cartuche L, Cruz D, Ramírez MI, Bailón N, Malagón O. Antibacterial and cytotoxic activity from the extract and fractions of a marine derived bacterium from the Streptomyces genus. PHARMACEUTICAL BIOLOGY 2015; 53:1826-1830. [PMID: 25880141 DOI: 10.3109/13880209.2015.1010739] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
CONTEXT Marine natural products are a rich source of potent, selective, and structurally novel compounds. Marine bacteria are considered the most promising source of biologically active compounds which can be applied to treat a wide range of diseases. OBJECTIVE The current study was designed to establish the bases for a future marine exploration in the Ecuadorian coast based on the molecular identification of a marine bacterium and its potential use as an antibacterial or cytotoxic compounds source. MATERIALS AND METHODS Isolation and characterization of the marine bacterium were carried out through microbiological methods from desiccated sediment. Molecular identification was made by means of 16S rDNA analysis. MIC was measured by the microdilution broth method against six pathogenic bacteria: two Gram positive and four Gram negative strains. Cytotoxicity was evaluated by Crystal violet assay against breast adenocarcinoma (MCF7) and ductal carcinoma (T47D and ZR-75-30). RESULTS Our present study has shown that EtOAc extract and fraction A1 obtained from marine Streptomyces sp. revealed the maximal antibacterial and cytotoxic activity. Enterococcus faecalis was found to be more sensitive strain (MIC 0.78 μg/ml) than the other five bacteria tested. ZR-75-30 and T47D cell lines were found to be more sensitive (IC50 value, 31.88 ± 0.05 and 68.35 ± 0.12 μg/ml) than adenocarcinoma MCF7 (IC50 value was 83.65 ± 0.06 μg/ml). DISCUSSION AND CONCLUSION The results obtained herein indicate that EtOAc extract of Streptomyces sp. has shown a strong antibacterial activity as well as moderate cytotoxic activity which make it a good candidate for metabolite isolation.
Collapse
Affiliation(s)
- Luis Cartuche
- Departamento de Química, Sección Química Básica y Aplicada, Universidad Técnica Particular de Loja , Loja , Ecuador
| | | | | | | | | |
Collapse
|
93
|
Trenin AS. [Microbial metabolites that inhibit sterol biosynthesis, their chemical diversity and characteristics of mode of action]. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2015; 39:633-57. [PMID: 25696927 DOI: 10.1134/s1068162013060095] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Inhibitors of sterol biosynthesis (ISB) are widespread in nature and characterized by appreciable diversity both in their chemical structure and mode of action. Many of these inhibitors express noticeable biological activity and approved themselves in development of various pharmaceuticals. In this review there is a detailed description of biologically active microbial metabolites with revealed chemical structure that have ability to inhibit sterol biosynthesis. Inhibitors of mevalonate pathway in fungous and mammalian cells, exhibiting hypolipidemic or antifungal activity, as well as inhibitors of alternative non-mevalonate (pyruvate gliceraldehyde phosphate) isoprenoid pathway, which are promising in the development of affective antimicrobial or antiparasitic drugs, are under consideration in this review. Chemical formulas of the main natural inhibitors and their semi-synthetic derivatives are represented. Mechanism of their action at cellular and biochemical level is discussed. Special attention is given to inhibitors of 3-hydroxy-3-methylglutaryl Coenzyme A (HMG-CoA) reductase (group of lovastatin) and inhibitors of acyl-CoA-cholesterol-acyl transferase (ACAT) that possess hypolipidemic activity and could be affective in the treatment of atherosclerosis. In case of inhibitors of late stages of sterol biosynthesis (after squalene formation) special attention is paid to compounds possessing evident antifungal and antitumoral activity. Explanation of mechanism of anticancer and antiviral action of microbial ISB, as well as the description of their ability to induce apoptosis is given.
Collapse
|
94
|
Yadav R, Balasubramanian K. Polyacrylonitrile/Syzygium aromaticum hierarchical hydrophilic nanocomposite as a carrier for antibacterial drug delivery systems. RSC Adv 2015. [DOI: 10.1039/c4ra12755b] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A versatile, maneuverable electrospinning process was exploited to fabricate intertwined-heterostructure polyacrylonitrile (PAN) nanofibers by incorporating the essential oilSyzygium aromaticumfor antibacterial drug delivery systems.
Collapse
Affiliation(s)
- Ramdayal Yadav
- Department of Materials Engineering
- DIAT (DU)
- Ministry of Defence
- Pune
- India
| | - K. Balasubramanian
- Department of Materials Engineering
- DIAT (DU)
- Ministry of Defence
- Pune
- India
| |
Collapse
|
95
|
Libis VK, Bernheim AG, Basier C, Jaramillo-Riveri S, Deyell M, Aghoghogbe I, Atanaskovic I, Bencherif AC, Benony M, Koutsoubelis N, Löchner AC, Marinkovic ZS, Zahra S, Zegman Y, Lindner AB, Wintermute EH. Silencing of antibiotic resistance in E. coli with engineered phage bearing small regulatory RNAs. ACS Synth Biol 2014; 3:1003-6. [PMID: 25524110 DOI: 10.1021/sb500033d] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
In response to emergent antibiotic resistance, new strategies are needed to enhance the effectiveness of existing antibiotics. Here, we describe a phagemid-delivered, RNA-mediated system capable of directly knocking down antibiotic resistance phenotypes. Small regulatory RNAs (sRNAs) were designed to specifically inhibit translation of chloramphenicol acetyltransferase and kanamycin phosphotransferase. Nonlytic phagemids coding for sRNA expression were able to infect and restore chloramphenicol and kanamycin sensitivity to populations of otherwise resistant E. coli. This modular system could easily be extended to other bacteria with resistance profiles that depend on specific transcripts.
Collapse
Affiliation(s)
| | | | - Clovis Basier
- 2013 Paris Bettencourt iGEM team, 75014 Paris, France
| | | | | | | | | | | | | | | | | | | | - Sarah Zahra
- 2013 Paris Bettencourt iGEM team, 75014 Paris, France
| | | | - Ariel B. Lindner
- 2013 Paris Bettencourt iGEM team, 75014 Paris, France
- U1001 Institut National de la Santé et de la Recherche Médicale, 75654 Paris, France
| | - Edwin H. Wintermute
- 2013 Paris Bettencourt iGEM team, 75014 Paris, France
- U1001 Institut National de la Santé et de la Recherche Médicale, 75654 Paris, France
| |
Collapse
|
96
|
Sumi CD, Yang BW, Yeo IC, Hahm YT. Antimicrobial peptides of the genus Bacillus: a new era for antibiotics. Can J Microbiol 2014; 61:93-103. [PMID: 25629960 DOI: 10.1139/cjm-2014-0613] [Citation(s) in RCA: 193] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
The rapid onset of resistance reduces the efficacy of most conventional antimicrobial drugs and is a general cause of concern for human well-being. Thus, there is great demand for a continuous supply of novel antibiotics to combat this problem. Bacteria-derived antimicrobial peptides (AMPs) have long been used as food preservatives; moreover, prior to the development of conventional antibiotics, these AMPs served as an efficient source of antibiotics. Recently, peptides produced by members of the genus Bacillus were shown to have a broad spectrum of antimicrobial activity against pathogenic microbes. Bacillus-derived AMPs can be synthesized both ribosomally and nonribosomally and can be classified according to peptide biosynthesis, structure, and molecular weight. The precise mechanism of action of these AMPs is not yet clear; however, one proposed mechanism is that these AMPs kill bacteria by forming channels in and (or) disrupting the bacterial cell wall. Bacillus-derived AMPs have potential in the pharmaceutical industry, as well as the food and agricultural sectors. Here, we focus on Bacillus-derived AMPs as a novel alternative approach to antibacterial drug development. We also provide an overview of the biosynthesis, mechanisms of action, applications, and effectiveness of different AMPs produced by members of the Bacillus genus, including several recently identified novel AMPs.
Collapse
Affiliation(s)
- Chandra Datta Sumi
- a Department of Systems Biotechnology, Chung-Ang University, 72-1 Nae-Ri, Daeduk-Myun, Anseong-Si, Gyeonggi-Do 456-756, South Korea
| | | | | | | |
Collapse
|
97
|
Combined drug therapy in the management of granulomatous amoebic encephalitis due to Acanthamoeba spp., and Balamuthia mandrillaris. Exp Parasitol 2014; 145 Suppl:S115-20. [DOI: 10.1016/j.exppara.2014.03.025] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2013] [Revised: 03/19/2014] [Accepted: 03/26/2014] [Indexed: 11/22/2022]
|
98
|
Antimicrobial activity of a UV-stable bacteriocin-like inhibitory substance (BLIS) produced by Enterococcus faecium strain DSH20 against vancomycin-resistant Enterococcus (VRE) strains. JOURNAL OF MICROBIOLOGY, IMMUNOLOGY, AND INFECTION = WEI MIAN YU GAN RAN ZA ZHI 2014; 47:371-6. [DOI: 10.1016/j.jmii.2013.05.004] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2013] [Revised: 05/02/2013] [Accepted: 05/07/2013] [Indexed: 11/24/2022]
|
99
|
Synergy of streptogramin antibiotics occurs independently of their effects on translation. Antimicrob Agents Chemother 2014; 58:5269-79. [PMID: 24957822 DOI: 10.1128/aac.03389-14] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Streptogramin antibiotics are divided into types A and B, which in combination can act synergistically. We compared the molecular interactions of the streptogramin combinations Synercid (type A, dalfopristin; type B, quinupristin) and NXL 103 (type A, flopristin; type B, linopristin) with the Escherichia coli 70S ribosome by X-ray crystallography. We further analyzed the activity of the streptogramin components individually and in combination. The streptogramin A and B components in Synercid and NXL 103 exhibit synergistic antimicrobial activity against certain pathogenic bacteria. However, in transcription-coupled translation assays, only combinations that include dalfopristin, the streptogramin A component of Synercid, show synergy. Notably, the diethylaminoethylsulfonyl group in dalfopristin reduces its activity but is the basis for synergy in transcription-coupled translation assays before its rapid hydrolysis from the depsipeptide core. Replacement of the diethylaminoethylsulfonyl group in dalfopristin by a nonhydrolyzable group may therefore be beneficial for synergy. The absence of general streptogramin synergy in transcription-coupled translation assays suggests that the synergistic antimicrobial activity of streptogramins can occur independently of the effects of streptogramin on translation.
Collapse
|
100
|
Genilloud O. The re-emerging role of microbial natural products in antibiotic discovery. Antonie Van Leeuwenhoek 2014; 106:173-88. [PMID: 24923558 DOI: 10.1007/s10482-014-0204-6] [Citation(s) in RCA: 76] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2014] [Accepted: 05/23/2014] [Indexed: 11/28/2022]
Abstract
New classes of antibacterial compounds are urgently needed to respond to the high frequency of occurrence of resistances to all major classes of known antibiotics. Microbial natural products have been for decades one of the most successful sources of drugs to treat infectious diseases but today, the emerging unmet clinical need poses completely new challenges to the discovery of novel candidates with the desired properties to be developed as antibiotics. While natural products discovery programs have been gradually abandoned by the big pharma, smaller biotechnology companies and research organizations are taking over the lead in the discovery of novel antibacterials. Recent years have seen new approaches and technologies being developed and integrated in a multidisciplinary effort to further exploit microbial resources and their biosynthetic potential as an untapped source of novel molecules. New strategies to isolate novel species thought to be uncultivable, and synthetic biology approaches ranging from genome mining of microbial strains for cryptic biosynthetic pathways to their heterologous expression have been emerging in combination with high throughput sequencing platforms, integrated bioinformatic analysis, and on-site analytical detection and dereplication tools for novel compounds. These different innovative approaches are defining a completely new framework that is setting the bases for the future discovery of novel chemical scaffolds that should foster a renewed interest in the identification of novel classes of natural product antibiotics from the microbial world.
Collapse
Affiliation(s)
- Olga Genilloud
- Fundación MEDINA, Avda Conocimiento 3, Parque Tecnológico Ciencias de la Salud, 18016, Granada, Spain,
| |
Collapse
|