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Veilumuthu P, Nagarajan T, Magar S, Sundaresan S, Moses LJ, Theodore T, Christopher JG. Genomic insights into an endophytic Streptomyces sp. VITGV156 for antimicrobial compounds. Front Microbiol 2024; 15:1407289. [PMID: 38887720 PMCID: PMC11180775 DOI: 10.3389/fmicb.2024.1407289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2024] [Accepted: 04/29/2024] [Indexed: 06/20/2024] Open
Abstract
Endophytic Streptomyces sp. are recognized as a potential resource for valuable natural products but are less explored. This study focused on exploring endophytic Streptomyces species residing within tomato plants (Solanum lycopersicum) harboring genes for the production of a novel class of antibiotics. Our research involved the isolation and characterization of Streptomyces sp. VITGV156, a newly identified endophytic Streptomyces species that produces antimicrobial products. VITGV156 harbors a genome of 8.18 mb and codes 6,512 proteins, of which 4,993 are of known function (76.67%) and 1,519 are of unknown function (23.32%). By employing genomic analysis, we elucidate the genome landscape of this microbial strain and shed light on various BGCs responsible for producing polyketide antimicrobial compounds, with particular emphasis on the antibiotic kendomycin. We extended our study by evaluating the antibacterial properties of kendomycin. Overall, this study provides valuable insights into the genome of endophytic Streptomyces species, particularly Streptomyces sp. VITGV156, which are prolific producers of antimicrobial agents. These findings hold promise for further research and exploitation of pharmaceutical compounds, offering opportunities for the development of novel antimicrobial drugs.
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Affiliation(s)
- Pattapulavar Veilumuthu
- Department of Biomedical Sciences, School of BioSciences and Technology, Vellore Institute of Technology, Vellore, India
| | - T. Nagarajan
- Department of Biological Sciences, SRM University-AP, Amaravathi, India
| | - Sharayu Magar
- Department of Biological Sciences, SRM University-AP, Amaravathi, India
| | - Sasikumar Sundaresan
- Department of Biochemistry, School of Biological Sciences, Madurai Kamaraj University, Madurai, India
| | - Lenus Joy Moses
- Department of Biomedical Sciences, School of BioSciences and Technology, Vellore Institute of Technology, Vellore, India
| | - Thomas Theodore
- School of Chemical Engineering, Vellore Institute of Technology, Vellore, India
| | - John Godwin Christopher
- Department of Biomedical Sciences, School of BioSciences and Technology, Vellore Institute of Technology, Vellore, India
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Parlindungan E, Jones OAH. Using metabolomics to understand stress responses in Lactic Acid Bacteria and their applications in the food industry. Metabolomics 2023; 19:99. [PMID: 37999908 DOI: 10.1007/s11306-023-02062-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Accepted: 11/07/2023] [Indexed: 11/25/2023]
Abstract
BACKGROUND Lactic Acid Bacteria (LAB) are commonly used as starter cultures, probiotics, to produce lactic acid and other useful compounds, and even as natural preservatives. For use in any food product however, LAB need to survive the various stresses they encounter in the environment and during processing. Understanding these mechanisms may enable direction of LAB biochemistry with potential beneficial impact for the food industry. AIM OF REVIEW To give an overview of the use of LAB in the food industry and then generate a deeper biochemical understanding of LAB stress response mechanisms via metabolomics, and methods of screening for robust strains of LAB. KEY SCIENTIFIC CONCEPTS OF REVIEW Uses of LAB in food products were assessed and factors which contribute to survival and tolerance in LAB investigated. Changes in the metabolic profiles of LAB exposed to stress were found to be associated with carbohydrates, amino acids and fatty acid levels and these changes were proposed to be a result of the bacteria trying to maintain cellular homeostasis in response to external conditions and minimise cellular damage from reactive oxygen species. This correlates with morphological analysis which shows that LAB can undergo cell elongation and shortening, as well as thinning and thickening of cell membranes, when exposed to stress. It is proposed that these innate strategies can be utilised to minimise negative effects caused by stress through selection of intrinsically robust strains, genetic modification and/or prior exposure to sublethal stress. This work demonstrates the utility of metabolomics to the food industry.
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Affiliation(s)
- Elvina Parlindungan
- Singapore Institute of Food and Biotechnology Innovation (SIFBI), Agency for Science, Technology and Research, 31 Biopolis Way, Singapore, 138669, Singapore
| | - Oliver A H Jones
- School of Science, Australian Centre for Research On Separation Science (ACROSS), RMIT University, PO Box 71, Bundoora, VIC, 3083, Australia.
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Tan W, Tian Y, Zhang Q, Miao S, Wu W, Miao X, Kuang H, Yang W. Antioxidant and antibacterial activity of Apis laboriosa honey against Salmonella enterica serovar Typhimurium. Front Nutr 2023; 10:1181492. [PMID: 37252242 PMCID: PMC10211265 DOI: 10.3389/fnut.2023.1181492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Accepted: 04/18/2023] [Indexed: 05/31/2023] Open
Abstract
Salmonella enterica serovar Typhimurium (S. Typhimurium) is a common food-borne pathogen that commonly causes gastroenteritis in humans and animals. Apis laboriosa honey (ALH) harvested in China has significant antibacterial activity against Staphylococcus aureus, Escherichia coli, and Bacillus subtilis. We hypothesize that ALH has antibacterial activity against S. Typhimurium. The physicochemical parameters, minimum inhibitory and bactericidal concentrations (MIC and MBC) and the possible mechanism were determined. The results showed that there were significantly different physicochemical parameters, including 73 phenolic compounds, among ALH samples harvested at different times and from different regions. Their antioxidant activity was affected by their components, especially total phenol and flavonoid contents (TPC, TFC), which had a high correlation with antioxidant activities except for the O2- assay. The MIC and MBC of ALH against S. Typhimurium were 20-30% and 25-40%, respectively, which were close to those of UMF5+ manuka honey. The proteomic experiment revealed the possible antibacterial mechanism of ALH1 at IC50 (2.97%, w/v), whose antioxidant activity reduced the bacterial reduction reaction and energy supply, mainly by inhibiting the citrate cycle (TCA cycle), amino acid metabolism pathways and enhancing the glycolysis pathway. The results provide a theoretical basis for the development of bacteriostatic agents and application of ALH.
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Affiliation(s)
- Weihua Tan
- College of Animal Science (College of Bee Science), Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
- Bee Product Processing and Application Research Center of the Ministry of Education, Fuzhou, Fujian, China
- College of Food Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Yuanyuan Tian
- College of Animal Science (College of Bee Science), Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
- Bee Product Processing and Application Research Center of the Ministry of Education, Fuzhou, Fujian, China
| | - Qingya Zhang
- Bee Product Processing and Application Research Center of the Ministry of Education, Fuzhou, Fujian, China
- College of Food Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Siwei Miao
- M.X.’s Expert Workstation, Pu’er, Yunnan, China
| | - Wenrong Wu
- Bee Product Processing and Application Research Center of the Ministry of Education, Fuzhou, Fujian, China
- College of Food Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Xiaoqing Miao
- Bee Product Processing and Application Research Center of the Ministry of Education, Fuzhou, Fujian, China
- M.X.’s Expert Workstation, Pu’er, Yunnan, China
| | - Haiou Kuang
- M.X.’s Expert Workstation, Pu’er, Yunnan, China
- Research Institute of Eastern Honeybee, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Wenchao Yang
- College of Animal Science (College of Bee Science), Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
- Bee Product Processing and Application Research Center of the Ministry of Education, Fuzhou, Fujian, China
- College of Food Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
- M.X.’s Expert Workstation, Pu’er, Yunnan, China
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Zhang W, Margarita GE, Wu D, Yuan W, Yan S, Qi S, Xue X, Wang K, Wu L. Antibacterial Activity of Chinese Red Propolis against Staphylococcus aureus and MRSA. Molecules 2022; 27:molecules27051693. [PMID: 35268793 PMCID: PMC8911571 DOI: 10.3390/molecules27051693] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2021] [Revised: 01/10/2022] [Accepted: 01/13/2022] [Indexed: 11/16/2022] Open
Abstract
The antibacterial activity of propolis has long been of great interest, and the chemical composition of propolis is directly dependent on its source. We recently obtained a type of propolis from China with a red color. Firstly, the antibacterial properties of this unusual propolis were determined against Staphylococcus aureus and methicillin-resistant Staphylococcus aureus (MRSA). Studies on its composition identified and quantified 14 main polyphenols of Chinese red propolis extracts (RPE); quantification was carried out using liquid chromatography triple quadrupole tandem mass spectrometry (LC-QQQ-MS/MS) and RPE was found to be rich in pinobanksin, pinobanksin-3-acetate, and chrysin. In vitro investigations of its antibacterial activity revealed that its activity against S. aureus and MRSA is due to disruption of the cell wall and cell membrane, which then inhibits bacterial growth. Despite its similar antibacterial activities against S. aureus and MRSA, metabolomic analysis further revealed the effects of RPE on bacteria metabolism were different. The untargeted metabolomic results showed that a total of 7 metabolites in 12 metabolic pathways had significant changes (Fold change > 2, p < 0.05 *) after RPE treatment in S. aureus, while 11 metabolites in 9 metabolic pathways had significant changes (Fold change > 2, p < 0.05 *) after RPE treated on MRSA. Furthermore, RPE downregulated several specific genes related to bacterial biofilm formation, autolysis, cell wall synthesis, and bacterial virulence in MRSA. In conclusion, the data obtained indicate that RPE may be a promising therapeutic agent against S. aureus and MRSA.
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Affiliation(s)
- Wenwen Zhang
- Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing 100094, China; (W.Z.); (S.Y.); (S.Q.); (X.X.)
| | | | - Di Wu
- College of Animal Science, Shanxi Agricultrual University, Jinzhong 030801, China;
| | - Wenqin Yuan
- School of Life Science, Liaocheng University, Liaocheng 252000, China;
| | - Sha Yan
- Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing 100094, China; (W.Z.); (S.Y.); (S.Q.); (X.X.)
| | - Suzhen Qi
- Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing 100094, China; (W.Z.); (S.Y.); (S.Q.); (X.X.)
| | - Xiaofeng Xue
- Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing 100094, China; (W.Z.); (S.Y.); (S.Q.); (X.X.)
| | - Kai Wang
- Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing 100094, China; (W.Z.); (S.Y.); (S.Q.); (X.X.)
- Correspondence: (K.W.); (L.W.)
| | - Liming Wu
- Institute of Apicultural Research, Chinese Academy of Agricultural Sciences, Beijing 100094, China; (W.Z.); (S.Y.); (S.Q.); (X.X.)
- Correspondence: (K.W.); (L.W.)
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Identification and Heterologous Expression of the Kendomycin B Biosynthetic Gene Cluster from Verrucosispora sp. SCSIO 07399. Mar Drugs 2021; 19:md19120673. [PMID: 34940672 PMCID: PMC8708025 DOI: 10.3390/md19120673] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Revised: 11/16/2021] [Accepted: 11/22/2021] [Indexed: 11/17/2022] Open
Abstract
Verrucosispora sp. SCSIO 07399, a rare marine-derived actinomycete, produces a set of ansamycin-like polyketides kendomycin B–D (1–3) which possess potent antibacterial activities and moderate tumor cytotoxicity. Structurally, kendomycin B–D contain a unique aliphatic macrocyclic ansa scaffold in which the highly substituted pyran ring is connected to the quinone moiety. In this work, a type I/type III polyketide synthase (PKS) hybrid biosynthetic gene cluster coding for assembly of kendomycin B (kmy), and covering 33 open reading frames, was identified from Verrucosispora sp. SCSIO 07399. The kmy cluster was found to be essential for kendomycin B biosynthesis as verified by gene disruption and heterologous expression. Correspondingly, a biosynthetic pathway was proposed based on bioinformatics, cluster alignments, and previous research. Additionally, the role of type III PKS for generating the precursor unit 3,5-dihydroxybenzoic acid (3,5-DHBA) was demonstrated by chemical complementation, and type I PKS executed the polyketide chain elongation. The kmy cluster was found to contain a positive regulatory gene kmy4 whose regulatory effect was identified using real-time quantitative PCR (RT-qPCR). These advances shed important new insights into kendomycin B biosynthesis and help to set the foundation for further research aimed at understanding and exploiting the carbacylic ansa scaffold.
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Morão LG, Lorenzoni ASG, Chakraborty P, Ayusso GM, Cavalca LB, Santos MB, Marques BC, Dilarri G, Zamuner C, Regasini LO, Ferreira H, Scheffers DJ. Investigating the Modes of Action of the Antimicrobial Chalcones BC1 and T9A. Molecules 2020; 25:molecules25204596. [PMID: 33050236 PMCID: PMC7587203 DOI: 10.3390/molecules25204596] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2020] [Revised: 09/29/2020] [Accepted: 10/06/2020] [Indexed: 02/02/2023] Open
Abstract
Xanthomonas citri subsp. citri (X. citri) is an important phytopathogen and causes Asiatic Citrus Canker (ACC). To control ACC, copper sprays are commonly used. As copper is an environmentally damaging heavy metal, new antimicrobials are needed to combat citrus canker. Here, we explored the antimicrobial activity of chalcones, specifically the methoxychalcone BC1 and the hydroxychalcone T9A, against X. citri and the model organism Bacillus subtilis. BC1 and T9A prevented growth of X. citri and B. subtilis in concentrations varying from 20 µg/mL to 40 µg/mL. BC1 and T9A decreased incorporation of radiolabeled precursors of DNA, RNA, protein, and peptidoglycan in X. citri and B. subtilis. Both compounds mildly affected respiratory activity in X. citri, but T9A strongly decreased respiratory activity in B. subtilis. In line with that finding, intracellular ATP decreased strongly in B. subtilis upon T9A treatment, whereas BC1 increased intracellular ATP. In X. citri, both compounds resulted in a decrease in intracellular ATP. Cell division seems not to be affected in X. citri, and, although in B. subtilis the formation of FtsZ-rings is affected, a FtsZ GTPase activity assay suggests that this is an indirect effect. The chalcones studied here represent a sustainable alternative to copper for the control of ACC, and further studies are ongoing to elucidate their precise modes of action.
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Affiliation(s)
- Luana G. Morão
- Departamento de Bioquímica e Microbiologia, Instituto de Biociências, Universidade Estadual Paulista, 130506-900 SP Rio Claro, Brazil; (L.G.M.); (G.D.); (C.Z.)
| | - André S. G. Lorenzoni
- Department of Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, 9747 AG Groningen, The Netherlands; (A.S.G.L.); (P.C.); (L.B.C.)
| | - Parichita Chakraborty
- Department of Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, 9747 AG Groningen, The Netherlands; (A.S.G.L.); (P.C.); (L.B.C.)
| | - Gabriela M. Ayusso
- Departamento de Química e Ciências Ambientais, Instituto de Biociências, Letras e Ciências Exatas, Universidade Estadual Paulista, 15054-000 SP São José do Rio Preto, Brazil; (G.M.A.); (M.B.S.); (B.C.M.); (L.O.R.)
| | - Lucia B. Cavalca
- Department of Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, 9747 AG Groningen, The Netherlands; (A.S.G.L.); (P.C.); (L.B.C.)
| | - Mariana B. Santos
- Departamento de Química e Ciências Ambientais, Instituto de Biociências, Letras e Ciências Exatas, Universidade Estadual Paulista, 15054-000 SP São José do Rio Preto, Brazil; (G.M.A.); (M.B.S.); (B.C.M.); (L.O.R.)
| | - Beatriz C. Marques
- Departamento de Química e Ciências Ambientais, Instituto de Biociências, Letras e Ciências Exatas, Universidade Estadual Paulista, 15054-000 SP São José do Rio Preto, Brazil; (G.M.A.); (M.B.S.); (B.C.M.); (L.O.R.)
| | - Guilherme Dilarri
- Departamento de Bioquímica e Microbiologia, Instituto de Biociências, Universidade Estadual Paulista, 130506-900 SP Rio Claro, Brazil; (L.G.M.); (G.D.); (C.Z.)
| | - Caio Zamuner
- Departamento de Bioquímica e Microbiologia, Instituto de Biociências, Universidade Estadual Paulista, 130506-900 SP Rio Claro, Brazil; (L.G.M.); (G.D.); (C.Z.)
| | - Luis O. Regasini
- Departamento de Química e Ciências Ambientais, Instituto de Biociências, Letras e Ciências Exatas, Universidade Estadual Paulista, 15054-000 SP São José do Rio Preto, Brazil; (G.M.A.); (M.B.S.); (B.C.M.); (L.O.R.)
| | - Henrique Ferreira
- Departamento de Bioquímica e Microbiologia, Instituto de Biociências, Universidade Estadual Paulista, 130506-900 SP Rio Claro, Brazil; (L.G.M.); (G.D.); (C.Z.)
- Correspondence: (H.F.); (D.-J.S.); Tel.: +31-50-3632319 (D.-J.S.)
| | - Dirk-Jan Scheffers
- Department of Molecular Microbiology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, 9747 AG Groningen, The Netherlands; (A.S.G.L.); (P.C.); (L.B.C.)
- Correspondence: (H.F.); (D.-J.S.); Tel.: +31-50-3632319 (D.-J.S.)
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Tranter D, Filipuzzi I, Lochmann T, Knapp B, Kellosalo J, Estoppey D, Pistorius D, Meissner A, Paavilainen VO, Hoepfner D. Kendomycin Cytotoxicity against Bacterial, Fungal, and Mammalian Cells Is Due to Cation Chelation. JOURNAL OF NATURAL PRODUCTS 2020; 83:965-971. [PMID: 32182062 PMCID: PMC7497661 DOI: 10.1021/acs.jnatprod.9b00826] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/29/2019] [Indexed: 06/10/2023]
Abstract
Kendomycin is a small-molecule natural product that has gained significant attention due to reported cytotoxicity against pathogenic bacteria and fungi as well as a number of cancer cell lines. Despite significant biomedical interest and attempts to reveal its mechanism of action, the cellular target of kendomycin remains disputed. Herein it is shown that kendomycin induces cellular responses indicative of cation stress comparable to the effects of established iron chelators. Furthermore, addition of excess iron and copper attenuated kendomycin cytotoxicity in bacteria, yeast, and mammalian cells. Finally, NMR analysis demonstrated a direct interaction with cations, corroborating a close link between the observed kendomycin polypharmacology across different species and modulation of iron and/or copper levels.
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Affiliation(s)
- Dale Tranter
- Institute
of Biotechnology, University of Helsinki, Helsinki, 00014, Finland
| | - Ireos Filipuzzi
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
| | - Thomas Lochmann
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
| | - Britta Knapp
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
| | - Juho Kellosalo
- Institute
of Biotechnology, University of Helsinki, Helsinki, 00014, Finland
| | - David Estoppey
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
| | - Dominik Pistorius
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
| | - Axel Meissner
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
| | | | - Dominic Hoepfner
- Novartis
Institutes for BioMedical Research, 4056 Basel, Switzerland
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Abdel-Shafi S, Al-Mohammadi AR, Almanaa TN, Moustafa AH, Saad TMM, Ghonemey AR, Anacarso I, Enan G, El-Gazzar N. Identification and Testing of Antidermatophytic Oxaborole-6-Benzene Sulphonamide Derivative (OXBS) from Streptomyces atrovirens KM192347 Isolated from Soil. Antibiotics (Basel) 2020; 9:antibiotics9040176. [PMID: 32294942 PMCID: PMC7235740 DOI: 10.3390/antibiotics9040176] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Revised: 04/04/2020] [Accepted: 04/09/2020] [Indexed: 12/18/2022] Open
Abstract
There is a need to continue research to find out other anti-dermatophytic agents to inhibit causal pathogenic skin diseases including many types of tinea. We undertook the production, purification, and identification of an anti-dermatophytic substance by Streptomyces atrovirens. Out of 103 streptomycete isolates tested, only 20 of them showed antidermatophytic activity with variable degrees against Trichophyton tonsurans CCASU 56400 (T. tonsurans), Microsporum canis CCASU 56402 (M. canis), and Trichophyton mentagrophytes CCASU 56404 (T. mentagrophytes). The most potent isolate, S10Q6, was identified based on the tests conducted that identified morphological and physiological characteristics and using 16S rRNA gene sequencing. The isolate was found to be closely correlated to previously described species Streptomyces atrovirens; it was designated Streptomyces atrovirens KM192347 (S. atrovirens). Maximum antifungal activity of the strain KM192347 was obtained in modified starch nitrate medium (MSNM) adjusted initially at pH 7.0 and incubated at 30 °C in shaken cultures (150 rpm) for seven days. The antifungal compound was purified by using two steps protocol including solvent extraction and column chromatography. The MIC of it was 20 µg/mL against the dermatophyte cultures tested. According to the data obtained from instrumental analysis and surveying the novel antibiotics database, the antidermatophytic substance produced by the strain KM192347 was characterized as an oxaborole-6-benzene sulphonamide derivative and designated oxaborole-6-benzene sulphonamide (OXBS) with the chemical formula C13H12 BNO4S. The crude OXBS didn’t show any toxicity on living cells. Finally, the results obtained herein described another anti-dermatophytic substance named an OXBS derivative.
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Affiliation(s)
- Seham Abdel-Shafi
- Department of Botany and Microbiology, Faculty of Science, Zagazig University, El-Sharqia 44519, Egypt;
- Correspondence: (S.A.-S.); (G.E.); Tel.: +20-1289600036 (S.A.-S.); +20-1009877015 (G.E.)
| | | | - Taghreed N. Almanaa
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh 11495, Saudi Arabia
| | - Ahmed H. Moustafa
- Department of Chemistry, Faculty of Science, Zagazig University, Zagazig 44519, Egypt;
| | | | | | - Immacolata Anacarso
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi, 41121 Modena, Italy;
| | - Gamal Enan
- Department of Botany and Microbiology, Faculty of Science, Zagazig University, El-Sharqia 44519, Egypt;
- Correspondence: (S.A.-S.); (G.E.); Tel.: +20-1289600036 (S.A.-S.); +20-1009877015 (G.E.)
| | - Nashwa El-Gazzar
- Department of Botany and Microbiology, Faculty of Science, Zagazig University, El-Sharqia 44519, Egypt;
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Zhang S, Xie Q, Sun C, Tian XP, Gui C, Qin X, Zhang H, Ju J. Cytotoxic Kendomycins Containing the Carbacylic Ansa Scaffold from the Marine-Derived Verrucosispora sp. SCSIO 07399. JOURNAL OF NATURAL PRODUCTS 2019; 82:3366-3371. [PMID: 31765156 DOI: 10.1021/acs.jnatprod.9b00654] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Three new kendomycin analogues, kendomycins B-D (1-3), were discovered from the marine-derived actinomycete Verrucosispora sp. SCSIO 07399. The structures of 1-3 were elucidated using diverse spectroscopic data analyses, X-ray crystallography, and semisynthetic derivatization. In vitro antimicrobial assays revealed that 1-3 all display good antibacterial activities against six Gram-positive bacteria with MIC values ranging from 0.5 to 8.0 μg/mL. Additionally, 1-3 were found to be moderately cytotoxic against MGC803, A549, HeLa, HepG2, MCF-7, and RKO human tumor cell lines; IC50 values ranged from 2.2 to 44 μM.
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Affiliation(s)
- Shanwen Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou 510301 , People's Republic of China
- College of Oceanology , University of Chinese Academy of Sciences , 19 Yuquan Road , Beijing 110039 , People's Republic of China
| | - Qing Xie
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Institute of Laboratory Medicine , Guangdong Medical University , Dongguan 523808 , People's Republic of China
| | - Changli Sun
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou 510301 , People's Republic of China
| | - Xin-Peng Tian
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou 510301 , People's Republic of China
| | - Chun Gui
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou 510301 , People's Republic of China
- College of Oceanology , University of Chinese Academy of Sciences , 19 Yuquan Road , Beijing 110039 , People's Republic of China
| | - Xiangjing Qin
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou 510301 , People's Republic of China
| | - Hua Zhang
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Institute of Laboratory Medicine , Guangdong Medical University , Dongguan 523808 , People's Republic of China
| | - Jianhua Ju
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Key Laboratory of Marine Materia Medica, RNAM Center for Marine Microbiology , South China Sea Institute of Oceanology, Chinese Academy of Sciences , 164 West Xingang Road , Guangzhou 510301 , People's Republic of China
- College of Oceanology , University of Chinese Academy of Sciences , 19 Yuquan Road , Beijing 110039 , People's Republic of China
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Cytochrome P450 Monooxygenase CYP139 Family Involved in the Synthesis of Secondary Metabolites in 824 Mycobacterial Species. Int J Mol Sci 2019; 20:ijms20112690. [PMID: 31159249 PMCID: PMC6600245 DOI: 10.3390/ijms20112690] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 05/10/2019] [Accepted: 05/11/2019] [Indexed: 12/15/2022] Open
Abstract
Tuberculosis (TB) is one of the top infectious diseases causing numerous human deaths in the world. Despite enormous efforts, the physiology of the causative agent, Mycobacterium tuberculosis, is poorly understood. To contribute to better understanding the physiological capacity of these microbes, we have carried out extensive in silico analyses of the 1111 mycobacterial species genomes focusing on revealing the role of the orphan cytochrome P450 monooxygenase (CYP) CYP139 family. We have found that CYP139 members are present in 894 species belonging to three mycobacterial groups: M. tuberculosis complex (850-species), Mycobacterium avium complex (34-species), and non-tuberculosis mycobacteria (10-species), with all CYP139 members belonging to the subfamily “A”. CYP139 members have unique amino acid patterns at the CXG motif. Amino acid conservation analysis placed this family in the 8th among CYP families belonging to different biological domains and kingdoms. Biosynthetic gene cluster analyses have revealed that 92% of CYP139As might be associated with producing different secondary metabolites. Such enhanced secondary metabolic potentials with the involvement of CYP139A members might have provided mycobacterial species with advantageous traits in diverse niches competing with other microbial or viral agents, and might help these microbes infect hosts by interfering with the hosts’ metabolism and immune system.
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Anupama R, Lulu S, Madhusmita R, Vino S, Mukherjee A, Babu S. Insights into the interaction of key biofilm proteins in Pseudomonas aeruginosa PAO1 with TiO 2 nanoparticle: An in silico analysis. J Theor Biol 2019; 462:12-25. [PMID: 30391649 DOI: 10.1016/j.jtbi.2018.10.057] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Revised: 10/26/2018] [Accepted: 10/29/2018] [Indexed: 10/27/2022]
Abstract
Pseudomonas aeruginosa is a pathogenic biofilm forming bacteria which exist in wide range of environments such as water, soil and human body. In an earlier study, we used a system biology approach based analysis of biofilm forming genes of P. aeruginosa and their possible role in TiO2 nanoparticle binding. The major protein of P. aeruginosa targeted by TiO2 was found to be KatA, a major catalase required for H2O2 resistance and acute virulence and the direct interacting protein partners of KatA were found to be DnaK, Hfq, RpoA and RpoS. To understand the protein-protein physical interaction characteristic of these key proteins involved in biofilm related processes, homology modeling, docking and molecular dynamic simulation were performed. For all these proteins, physical and chemical properties, amino acid composition, nest and cleft analysis were performed using online tools. The interactions between TiO2NPs-KatA and four protein-protein complexes such as KatA-DnaK, KatA-Hfq, KatA-RpoA and KatA-RpoS were studied. Our results indicate that all four key proteins and TiO2NPs can have stable complexation with KatA. The study has given enough clues to understand the interaction of TiO2NPs with P. aeruginosa biofilm in natural environment. Further investigations could lead to development of TiO2NPs based therapeutic and sanitary interventions to combat this pathogenic bacterium.
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Affiliation(s)
- Rani Anupama
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore 632014, Tamil Nadu, India
| | - Sajitha Lulu
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore 632014, Tamil Nadu, India.
| | - Rout Madhusmita
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore 632014, Tamil Nadu, India
| | - Sundararajan Vino
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore 632014, Tamil Nadu, India.
| | - Amitava Mukherjee
- Centre for Nanobiotechnology, Vellore Institute of Technology, Vellore 632014, Tamil Nadu, India.
| | - Subramanian Babu
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore 632014, Tamil Nadu, India.
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12
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Liu C, Shan B, Qi J, Ma Y. Systemic Responses of Multidrug-Resistant Pseudomonas aeruginosa and Acinetobacter baumannii Following Exposure to the Antimicrobial Peptide Cathelicidin-BF Imply Multiple Intracellular Targets. Front Cell Infect Microbiol 2017; 7:466. [PMID: 29164074 PMCID: PMC5681922 DOI: 10.3389/fcimb.2017.00466] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Accepted: 10/20/2017] [Indexed: 12/04/2022] Open
Abstract
Cathelicidin-BF, derived from the banded krait (Bungarus fasciatus), is a typically cationic, amphiphilic and α-helical antimicrobial peptide (AMP) with 30 amino acids that exerts powerful effects on multidrug-resistant (MDR) clinical isolates, including Pseudomonas aeruginosa, Acinetobacter baumannii, and Klebsiella pneumoniae, but whether it targets plasma membranes or intracellular targets to kill bacteria is still controversial. In the present study, we demonstrated that the disruption of bacterial membranes with high concentrations of cathelicidin-BF was the cause of bacterial death, as with conventional antibiotics at high concentrations. At lower concentrations, cathelicidin-BF did not cause bacterial plasma membrane disruption, but it was able to cross the membrane and aggregate at the nucleoid regions. Functional proteins of the transcription processes of P. aeruginosa and A. baumannii were affected by sublethal doses of cathelicidin-BF, as demonstrated by comparative proteomics using isobaric tags for relative and absolute quantification and subsequent gene ontology (GO) analysis. Analysis using the Kyoto Encyclopedia of Genes and Genomes showed that cathelicidin-BF mainly interferes with metabolic pathways related to amino acid synthesis, metabolism of cofactors and vitamins, metabolism of purine and energy supply, and other processes. Although specific targets of cathelicidin-BF must still be validated, our study offers strong evidence that cathelicidin-BF may act upon intracellular targets to kill superbugs, which may be helpful for further efforts to discover novel antibiotics to fight against them.
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Affiliation(s)
- Cunbao Liu
- Laboratory of Molecular Immunology, Institute of Medical Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Kunming, China
| | - Bin Shan
- Department of Clinical Lab, The First Affiliated Hospital of Kunming Medical University, Kunming, China
| | - Jialong Qi
- Laboratory of Molecular Immunology, Institute of Medical Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Kunming, China
| | - Yanbing Ma
- Laboratory of Molecular Immunology, Institute of Medical Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Kunming, China
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13
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Rempe CS, Burris KP, Lenaghan SC, Stewart CN. The Potential of Systems Biology to Discover Antibacterial Mechanisms of Plant Phenolics. Front Microbiol 2017; 8:422. [PMID: 28360902 PMCID: PMC5352675 DOI: 10.3389/fmicb.2017.00422] [Citation(s) in RCA: 66] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2016] [Accepted: 02/28/2017] [Indexed: 12/13/2022] Open
Abstract
Drug resistance of bacterial pathogens is a growing problem that can be addressed through the discovery of compounds with novel mechanisms of antibacterial activity. Natural products, including plant phenolic compounds, are one source of diverse chemical structures that could inhibit bacteria through novel mechanisms. However, evaluating novel antibacterial mechanisms of action can be difficult and is uncommon in assessments of plant phenolic compounds. With systems biology approaches, though, antibacterial mechanisms can be assessed without the bias of target-directed bioassays to enable the discovery of novel mechanism(s) of action against drug resistant microorganisms. This review article summarizes the current knowledge of antibacterial mechanisms of action of plant phenolic compounds and discusses relevant methodology.
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Affiliation(s)
- Caroline S. Rempe
- College of Arts and Sciences, Graduate School of Genome Science and Technology, University of TennesseeKnoxville, TN, USA
| | - Kellie P. Burris
- Department of Food Science, University of TennesseeKnoxville, TN, USA
- Department of Food, Bioprocessing and Nutrition Sciences, North Carolina State UniversityRaleigh, NC, USA
| | - Scott C. Lenaghan
- Department of Food Science, University of TennesseeKnoxville, TN, USA
- Department of Mechanical, Aerospace, and Biomedical Engineering, University of TennesseeKnoxville, TN, USA
| | - C. Neal Stewart
- College of Arts and Sciences, Graduate School of Genome Science and Technology, University of TennesseeKnoxville, TN, USA
- Department of Plant Sciences, University of TennesseeKnoxville, TN, USA
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Milosavljevic V, Jelinkova P, Jimenez Jimenez AM, Moulick A, Haddad Y, Buchtelova H, Krizkova S, Heger Z, Kalina L, Richtera L, Kopel P, Adam V. Alternative Synthesis Route of Biocompatible Polyvinylpyrrolidone Nanoparticles and Their Effect on Pathogenic Microorganisms. Mol Pharm 2016; 14:221-233. [PMID: 27943679 DOI: 10.1021/acs.molpharmaceut.6b00807] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Herein we describe a novel alternative synthesis route of polyvinylpyrrolidone nanoparticles using salting-out method at a temperature close to polyvinylpyrrolidone decomposition. At elevated temperatures, the stability of polyvinylpyrrolidone decreases and the opening of pyrrolidone ring fractions occurs. This leads to cross-linking process, where separate units of polyvinylpyrrolidone interact among themselves and rearrange to form nanoparticles. The formation/stability of these nanoparticles was confirmed by transmission electron microscopy, X-ray photoelectron spectroscopy, mass spectrometry, infrared spectroscopy, and spectrophotometry. The obtained nanoparticles possess exceptional biocompatibility. No toxicity and genotoxicity was found in normal human prostate epithelium cells (PNT1A) together with their high hemocompatibility. The antimicrobial effects of polyvinylpyrrolidone nanoparticles were tested on bacterial strains isolated from the wounds of patients suffering from hard-to-heal infections. Molecular analysis (qPCR) confirmed that the treatment can induce the regulation of stress-related survival genes. Our results strongly suggest that the polyvinylpyrrolidone nanoparticles have great potential to be developed into a novel antibacterial compound.
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Affiliation(s)
- Vedran Milosavljevic
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic
| | - Pavlina Jelinkova
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic
| | - Ana Maria Jimenez Jimenez
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Amitava Moulick
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Yazan Haddad
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Hana Buchtelova
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic
| | - Sona Krizkova
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Zbynek Heger
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Lukas Kalina
- Materials Research Centre, Faculty of Chemistry, Brno University of Technology , Purkynova 118, Brno CZ-612 00, Czech Republic
| | - Lukas Richtera
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Pavel Kopel
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
| | - Vojtech Adam
- Department of Chemistry and Biochemistry, Mendel University in Brno , Zemedelska 1, CZ-613 00 Brno, Czech Republic.,Central European Institute of Technology, Brno University of Technology , Technicka 3058/10, CZ-616 00 Brno, Czech Republic
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Cushnie TPT, O'Driscoll NH, Lamb AJ. Morphological and ultrastructural changes in bacterial cells as an indicator of antibacterial mechanism of action. Cell Mol Life Sci 2016; 73:4471-4492. [PMID: 27392605 PMCID: PMC11108400 DOI: 10.1007/s00018-016-2302-2] [Citation(s) in RCA: 118] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2016] [Revised: 06/21/2016] [Accepted: 06/28/2016] [Indexed: 01/20/2023]
Abstract
Efforts to reduce the global burden of bacterial disease and contend with escalating bacterial resistance are spurring innovation in antibacterial drug and biocide development and related technologies such as photodynamic therapy and photochemical disinfection. Elucidation of the mechanism of action of these new agents and processes can greatly facilitate their development, but it is a complex endeavour. One strategy that has been popular for many years, and which is garnering increasing interest due to recent technological advances in microscopy and a deeper understanding of the molecular events involved, is the examination of treated bacteria for changes to their morphology and ultrastructure. In this review, we take a critical look at this approach. Variables affecting antibacterial-induced alterations are discussed first. These include characteristics of the test organism (e.g. cell wall structure) and incubation conditions (e.g. growth medium osmolarity). The main body of the review then describes the different alterations that can occur. Micrographs depicting these alterations are presented, together with information on agents that induce the change, and the sequence of molecular events that lead to the change. We close by highlighting those morphological and ultrastructural changes which are consistently induced by agents sharing the same mechanism (e.g. spheroplast formation by peptidoglycan synthesis inhibitors) and explaining how changes that are induced by multiple antibacterial classes (e.g. filamentation by DNA synthesis inhibitors, FtsZ disruptors, and other types of agent) can still yield useful mechanistic information. Lastly, recommendations are made regarding future study design and execution.
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Affiliation(s)
- T P Tim Cushnie
- Faculty of Medicine, Mahasarakham University, Khamriang, Kantarawichai, Maha Sarakham, 44150, Thailand.
| | - Noëlle H O'Driscoll
- School of Pharmacy and Life Sciences, Robert Gordon University, Sir Ian Wood Building, Garthdee Road, Aberdeen, AB10 7GJ, UK
| | - Andrew J Lamb
- School of Pharmacy and Life Sciences, Robert Gordon University, Sir Ian Wood Building, Garthdee Road, Aberdeen, AB10 7GJ, UK
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