Interaction of zincite, alpha-terpineol, geranyl acetate, linalool, myrcenol, terpinolene, and thymol with virulence factors of Escherichia coli, Mycobacterium tuberculosis, Pseudomonas aeruginosa, and Staphylococcus aureus

References

• Mohammadi MR, Sabati H. When successive viral mutations prevent definitive treatment of COVID-19. Cell Mol Biomed Rep. 2022;2(2):98–108. doi: 10.55705/cmbr.2022.339012.1040
   Google Scholar
• Alavi M, Hamblin MR, Mozafari MR, et al. Surface modification of SiO2 nanoparticles for bacterial decontaminations of blood products. Cell Mol Biomed Rep. 2022;2(2):87–97. doi: 10.55705/cmbr.2022.338888.1039
   Google Scholar
• Ahmadi S. Antibacterial and antifungal activities of medicinal plant species and endophytes. Cell Mol Biomed Rep. 2022;2(2):109–115. doi: 10.55705/cmbr.2022.340532.1042
   Google Scholar
• Behzadmehr R, Rezaie-Keikhaie K. Evaluation of active pulmonary tuberculosis among women with diabetes. Cell Mol Biomed Rep. 2022;2(1):56–63. doi: 10.55705/cmbr.2022.336572.1036
   Google Scholar
• Rahbar-Karbasdehi E, Rahbar-Karbasdehi F. Clinical challenges of stress cardiomyopathy during coronavirus 2019 epidemic. Cell Mol Biomed Rep. 2021;1(2):88–90. doi: 10.55705/cmbr.2021.145790.1018
   Google Scholar
• Terreni M, Taccani M, Pregnolato M. New antibiotics for multidrug-resistant bacterial strains: latest research developments and future perspectives. Molecules. 2021;26(9):2671. doi: 10.3390/molecules26092671
   PubMed Web of Science ®Google Scholar
• Alavi M, Rai M, Martinez F, et al. The efficiency of metal, metal oxide, and metalloid nanoparticles against cancer cells and bacterial pathogens: different mechanisms of action. Cell Mol Biomed Rep. 2022;2(1):10–21. doi: 10.55705/cmbr.2022.147090.1023
   Google Scholar
• Abbas-Al-Khafaji ZK, Aubais-Aljelehawy Q. Evaluation of antibiotic resistance and prevalence of multi-antibiotic resistant genes among Acinetobacter baumannii strains isolated from patients admitted to al-Yarmouk hospital. Cell Mol Biomed Rep. 2021;1(2):60–68. doi: 10.55705/cmbr.2021.142761.1015
   Google Scholar
• Ye L, Cao Z, Liu X, et al. Noble metal-based nanomaterials as antibacterial agents. J Alloys Compd. 2022;904:164091. doi: 10.1016/j.jallcom.2022.164091
   Web of Science ®Google Scholar
• Alavi M, Rai M. Antisense RNA, the modified CRISPR-Cas9, and metal/metal oxide nanoparticles to inactivate pathogenic bacteria. Cell Mol Biomed Rep. 2021;1(2):52–59. doi: 10.55705/cmbr.2021.142436.1014
   Google Scholar
• Alavi M, Rai M. Chapter 11 - Antibacterial and wound healing activities of micro/nanocarriers based on carboxymethyl and quaternized chitosan derivatives. In: Rai M dos Santos C, editors. Biopolymer-based nano films. Elsevier; 2021. p. 191–201. doi: 10.1016/B978-0-12-823381-8.00009-0
   Google Scholar
• Kannan K, Radhika D, Sadasivuni KK, et al. Nanostructured metal oxides and its hybrids for photocatalytic and biomedical applications. Adv Colloid Interface Sci. 2020;281:102178. doi: 10.1016/j.cis.2020.102178
   PubMed Web of Science ®Google Scholar
• Alavi M, Thomas S, Sreedharan M. Modification of silica nanoparticles for antibacterial activities: mechanism of action. Micro Nano Bio Aspects. 2022;1(1):49–58. doi:10.22034/mnba.2022.153448.
   Google Scholar
• Abd Elkodous M, El-Sayyad GS, Abdelrahman IY, et al. Therapeutic and diagnostic potential of nanomaterials for enhanced biomedical applications. Colloids Surf B Biointerfaces. 2019;180:411–428. doi: 10.1016/j.colsurfb.2019.05.008
   PubMed Web of Science ®Google Scholar
• Alavi M, Rai M, Varma RS, et al. Conventional and novel methods for the preparation of micro and nanoliposomes. Micro Nano Bio Aspects. 2022;1(1):18–29. doi:10.22034/mnba.2022.150564.
   Google Scholar
• Ashengroph M, Muhtasam Zorab M. Investigating green synthesis of copper nanoparticles using the bacterium pseudomonas grimontii, their characterization, and antibacterial activity. Biol J Microorganism. 2022;11(41):61–79.
   PubMedGoogle Scholar
• Alavi M, Hamblin MR, Martinez F, et al. Synergistic combinations of metal, metal oxide, or metalloid nanoparticles plus antibiotics against resistant and non-resistant bacteria. Micro Nano Bio Aspects. 2022;1(1):1–9. doi:10.22034/mnba.2022.149374.
   Google Scholar
• Ashengroph M, Meschi Y. Investigating the extracellular synthesis of magnetic nanoparticles by an endophytic bacterium bacillus sp. Strain BR06 under the cell-free extract strategy. Biol J Microorganism. 2022;11(42):1–16.
   PubMedGoogle Scholar
• Alavi M, Kowalski R, Capasso R, et al. Various novel strategies for functionalization of gold and silver nanoparticles to hinder drug-resistant bacteria and cancer cells. Micro Nano Bio Aspects. 2022;1(1):38–48. doi:10.22034/mnba.2022.152629.
   Google Scholar
• Ashengroph M, Tozandehjani S. Optimized resting cell method for green synthesis of selenium nanoparticles from a new Rhodotorula mucilaginosa strain. Process Biochem. 2022;116:197–205. doi: 10.1016/j.procbio.2022.03.014
   Web of Science ®Google Scholar
• Ahmadi S, Ahmadi G, Ahmadi H. A review on antifungal and antibacterial activities of some medicinal plants. Micro Nano Bio Aspects. 2022;1(1):10–17. doi:10.22034/mnba.2022.150563.
   Google Scholar
• Alavi M, Martinez F, Delgado DR, et al. Anticancer and antibacterial activities of embelin: Micro and nano aspects. Micro Nano Bio Aspects. 2022;1(1):30–37. doi:10.22034/mnba.2022.151603.
   Google Scholar
• Salem SS, Fouda A. Green synthesis of metallic nanoparticles and their prospective biotechnological applications: an overview. Biol Trace Elem Res. 2021;199(1):344–370. doi: 10.1007/s12011-020-02138-3
   PubMed Web of Science ®Google Scholar
• Salem SS. A mini review on green nanotechnology and its development in biological effects. Arch Microbiol. 2023;205(4):128. doi: 10.1007/s00203-023-03467-2
   PubMed Web of Science ®Google Scholar
• Soliman MKY, Salem SS, Abu-Elghait M, et al. Biosynthesis of silver and gold nanoparticles and their efficacy towards antibacterial, antibiofilm, cytotoxicity, and antioxidant activities. Appl Biochem Biotechnol. 2023;195(2):1158–1183. doi: 10.1007/s12010-022-04199-7
   PubMed Web of Science ®Google Scholar
• Makabenta JMV, Nabawy A, Li C-H, et al. Nanomaterial-based therapeutics for antibiotic-resistant bacterial infections. Nature Rev Microbiol. 2021;19(1):23–36. doi: 10.1038/s41579-020-0420-1
   PubMed Web of Science ®Google Scholar
• Jeong J, Kim S-H, Lee S, et al. Differential contribution of constituent metal ions to the cytotoxic effects of fast-dissolving metal-oxide nanoparticles. Front Pharmacol. 2018;9. doi: 10.3389/fphar.2018.00015.
   Web of Science ®Google Scholar
• Thambirajoo M, Maarof M, Lokanathan Y, et al. Potential of nanoparticles integrated with antibacterial properties in preventing biofilm and antibiotic resistance. Antibiotics. 2021;10(11):1338. doi: 10.3390/antibiotics10111338
   Google Scholar
• Daoudi H, Bouafia A, Meneceur S, et al. Secondary metabolite from nigella sativa seeds mediated synthesis of silver oxide nanoparticles for efficient antioxidant and antibacterial activity. J Inorg Organomet Polym Mater. 2022;32(11):4223–4236. doi: 10.1007/s10904-022-02393-y
   Web of Science ®Google Scholar
• Alavi M, Adulrahman NA, Haleem AA, et al. Nanoformulations of curcumin and quercetin with silver nanoparticles for inactivation of bacteria. Cell Mol Biol. 2022;67(5):151–156. doi: 10.14715/cmb/2021.67.5.21
   PubMed Web of Science ®Google Scholar
• Abdelghany TM, Al-Rajhi AMH, Yahya R, et al. Phytofabrication of zinc oxide nanoparticles with advanced characterization and its antioxidant, anticancer, and antimicrobial activity against pathogenic microorganisms. Biomass Convers Biorefin. 2023;13(1):417–430. doi: 10.1007/s13399-022-03412-1
   Web of Science ®Google Scholar
• Al-Rajhi AMH, Salem SS, Alharbi AA, et al. Ecofriendly synthesis of silver nanoparticles using Kei-apple (Dovyalis caffra) fruit and their efficacy against cancer cells and clinical pathogenic microorganisms. Arabian J Chem. 2022;15(7):103927. doi: 10.1016/j.arabjc.2022.103927
   Web of Science ®Google Scholar
• Abdelaziz AM, Salem SS, Khalil AMA, et al. Potential of biosynthesized zinc oxide nanoparticles to control Fusarium wilt disease in eggplant (Solanum melongena) and promote plant growth. Biometals. 2022;35(3):601–616. doi: 10.1007/s10534-022-00391-8
   PubMed Web of Science ®Google Scholar
• Salem SS. Bio-fabrication of selenium nanoparticles using baker’s yeast extract and its antimicrobial efficacy on food borne pathogens. Appl Biochem Biotechnol. 2022;194(5):1898–1910. doi: 10.1007/s12010-022-03809-8
   PubMed Web of Science ®Google Scholar
• Alavi M, Nokhodchi A. Antimicrobial and wound healing activities of electrospun nanofibers based on functionalized carbohydrates and proteins. Cellul. 2022;29(3):1331–1347. doi: 10.1007/s10570-021-04412-6
   Web of Science ®Google Scholar
• Rodríguez-Félix F, Graciano-Verdugo AZ, Moreno-Vásquez MJ, et al. Trends in sustainable green synthesis of silver nanoparticles using agri-food waste extracts and their applications in health. J Nanomater. 2022;2022:1–37. doi: 10.1155/2022/8874003
   Web of Science ®Google Scholar
• Alavi M, Varma RS. Antibacterial and wound healing activities of silver nanoparticles embedded in cellulose compared to other polysaccharides and protein polymers. Cellul. 2021;28(13):8295–8311. doi: 10.1007/s10570-021-04067-3
   Web of Science ®Google Scholar
• Yang L, Wei Z, Li S, et al. Plant secondary metabolite, daphnetin reduces extracellular polysaccharides production and virulence factors of Ralstonia solanacearum. Pestic Biochem Physiol. 2021;179:104948. doi: 10.1016/j.pestbp.2021.104948
   PubMed Web of Science ®Google Scholar
• León-Buitimea A, Garza-Cárdenas CR, Garza-Cervantes JA, et al. The demand for new antibiotics: antimicrobial peptides, nanoparticles, and combinatorial therapies as future strategies in antibacterial agent design. Front Microbiol. 2020;11. doi: 10.3389/fmicb.2020.01669.
   PubMed Web of Science ®Google Scholar
• Alavi M, Karimi N. Antibacterial, hemoglobin/albumin-interaction, and molecular docking properties of phytogenic AgNPs functionalized by three antibiotics of penicillin, amoxicillin, and tetracycline. Microb Pathog. 2022;164:105427. doi: 10.1016/j.micpath.2022.105427
   PubMed Web of Science ®Google Scholar
• Genji Srinivasulu Y, Mozhi A, Goswami N, et al. Gold nanocluster based nanocomposites for combinatorial antibacterial therapy for eradicating biofilm forming pathogens. Mater Chem Front. 2022;6(6):689–706. doi: 10.1039/D1QM00936B
   Web of Science ®Google Scholar
• Alavi M, Karimi N, Salimikia I. Phytosynthesis of zinc oxide nanoparticles and its antibacterial, antiquorum sensing, antimotility, and antioxidant capacities against multidrug resistant bacteria. J Ind Eng Chem. 2019;72:457–473. doi: 10.1016/j.jiec.2019.01.002
   Web of Science ®Google Scholar
• Alonso B, Fernández-Barat L, Di Domenico EG, et al. Characterization of the virulence of Pseudomonas aeruginosa strains causing ventilator-associated pneumonia. BMC Infect Dis. 2020;20(1):909. doi: 10.1186/s12879-020-05534-1
   PubMed Web of Science ®Google Scholar
• Sundar S, Thangamani L, Manivel G, et al. Molecular docking, molecular dynamics and MM/PBSA studies of FDA approved drugs for protein kinase a of mycobacterium tuberculosis; application insights of drug repurposing. Inf Med Unlocked. 2019;16:100210. doi: 10.1016/j.imu.2019.100210
   Google Scholar
• Everett MJ, Davies DT, Leiris S, et al. Chemical optimization of selective pseudomonas aeruginosa LasB elastase inhibitors and their impact on LasB-Mediated activation of IL-1β in cellular and animal infection models. ACS Infect Dis. 2023;9(2):270–282. doi: 10.1021/acsinfecdis.2c00418
   PubMedGoogle Scholar
• Berra L, Schmidt U, Wiener-Kronish J. Relationship between virulence factors and outcome of ventilator-associated pneumonia related to Pseudomonas aeruginosa. Curr Respir Med Rev. 2010;6(1):19–25. doi: 10.2174/157339810790820458
   Google Scholar
• Vandenesch F, Lina G, Henry T. Staphylococcus aureus hemolysins, bi-component leukocidins, and cytolytic peptides: a redundant arsenal of membrane-damaging virulence factors? Front Cell Infect Microbiol. 2012;2. doi: 10.3389/fcimb.2012.00012
   PubMed Web of Science ®Google Scholar
• Shalaby M-A, Dokla EME, Serya RAT, et al. Penicillin binding protein 2a: An overview and a medicinal chemistry perspective. Eur J Med Chem. 2020;199:112312. doi: 10.1016/j.ejmech.2020.112312
   PubMed Web of Science ®Google Scholar
• Nagarajan SN, Upadhyay S, Chawla Y, et al. Protein kinase a (PknA) of Mycobacterium tuberculosis is independently activated and is critical for growth in vitro and survival of the pathogen in the host. J Biol Chem. 2015;290(15):9626–9645. doi: 10.1074/jbc.M114.611822
   PubMed Web of Science ®Google Scholar
• Gijsbers A, Vinciauskaite V, Siroy A, et al. Priming mycobacterial ESX-secreted protein B to form a channel-like structure. Curr Res Struct Biol. 2021;3:153–164. doi: 10.1016/j.crstbi.2021.06.001
   PubMedGoogle Scholar
• Huang D, Bao L. Mycobacterium tuberculosis EspB protein suppresses interferon-γ-induced autophagy in murine macrophages. J Microbiol Immunol Infect. 2016;49(6):859–865. doi: 10.1016/j.jmii.2014.11.008
   PubMedGoogle Scholar
• Duan Q, Xia P, Nandre R, et al. Review of newly identified functions associated with the heat-labile toxin of enterotoxigenic Escherichia coli. Front Cell Infect Microbiol. 2019;9. doi: 10.3389/fcimb.2019.00292.
   Web of Science ®Google Scholar
• Ardissino G, Vignati C, Masia C, et al. Bloody diarrhea and Shiga toxin–producing Escherichia coli hemolytic uremic syndrome in children: data from the ItalKid-HUS network. J Paediatr. 2021;237:34–40.e31. doi: 10.1016/j.jpeds.2021.06.048
   PubMed Web of Science ®Google Scholar
• Tian W, Chen C, Lei X, et al. Castp 3.0: computed atlas of surface topography of proteins. Nucleic Acids Res. 2018;46(W1):W363–W367. doi: 10.1093/nar/gky473
   PubMed Web of Science ®Google Scholar
• Xiong G, Wu Z, Yi J, et al. Admetlab 2.0: an integrated online platform for accurate and comprehensive predictions of ADMET properties. Nucleic Acids Res. 2021;49(W1):W5–w14. doi: 10.1093/nar/gkab255
   PubMed Web of Science ®Google Scholar
• Trott O, Olson AJ. AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. J Comput Chem. 2010;31(2):455–461. doi: 10.1002/jcc.21334
   PubMed Web of Science ®Google Scholar
• Manimaran S, SambathKumar K, Gayathri R, et al. Medicinal plant using ground state stabilization of natural antioxidant curcumin by keto-enol tautomerisation. Nat Prod Bioprospecting. 2018;8(5):369–390. doi: 10.1007/s13659-018-0170-1
   PubMed Web of Science ®Google Scholar
• Bayoumy AM, Ibrahim M, Omar A. Mapping molecular electrostatic potential (MESP) for fulleropyrrolidine and its derivatives. Opt Quantum Electron. 2020;52(7):346. doi: 10.1007/s11082-020-02467-6
   Web of Science ®Google Scholar
• Hassanzadeh K, Akhtari K, Esmaeili SS, et al. Encapsulation of Thiotepa and altretamine as neurotoxic anticancer drugs in Cucurbit[n]uril (n=7, 8) nanocapsules: A DFT study. J Theor Comput Chem. 2016;15(7):1650056. doi: 10.1142/S0219633616500565
   Web of Science ®Google Scholar
• López-Blanco JR, Aliaga JI, Quintana-Ortí ES, et al. iMODS: internal coordinates normal mode analysis server. Nucleic Acids Res. 2014;42(Web Server issue):W271–276. doi: 10.1093/nar/gku339
   PubMed Web of Science ®Google Scholar
• Lopéz-Blanco JR, Garzón JI, Chacón P. iMod: multipurpose normal mode analysis in internal coordinates. Bioinformatics. 2011;27(20):2843–2850. doi: 10.1093/bioinformatics/btr497
   PubMed Web of Science ®Google Scholar
• Kovacs JA, Chacón P, Abagyan R. Predictions of protein flexibility: first-order measures. Proteins. 2004;56(4):661–668. doi: 10.1002/prot.20151
   PubMed Web of Science ®Google Scholar
• Ghosh P, Bhakta S, Bhattacharya M, et al. A novel multi-epitopic peptide vaccine candidate against helicobacter pylori: in-silico identification, design, cloning and validation through molecular dynamics. Int J Pept Res Ther. 2021;27(2):1149–1166. doi: 10.1007/s10989-020-10157-w
   PubMed Web of Science ®Google Scholar
• Suhre K, Sanejouand Y-H. ElNémo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement. Nucleic Acids Res. 2004;32(suppl_2):W610–W614. doi: 10.1093/nar/gkh368
   PubMed Web of Science ®Google Scholar
• Wang C-Y, Chen Y-W, Hou C-Y. Antioxidant and antibacterial activity of seven predominant terpenoids. Int J Food Prop. 2019;22(1):230–238. doi: 10.1080/10942912.2019.1582541
   Web of Science ®Google Scholar
• Sayout A, Ouarhach A, Rabie R, et al. Evaluation of antibacterial activity of Lavandula pedunculata subsp. atlantica (Braun-Blanq.) romo essential oil and selected terpenoids against resistant bacteria strains–structure–activity relationships. Chem Biodivers. 2020;17(1):e1900496. doi: 10.1002/cbdv.201900496
   PubMed Web of Science ®Google Scholar
• Soni R, Sharma G, Jasuja ND. Essential oil yield pattern and antibacterial and insecticidal activities of Trachyspermum ammi and Myristica fragrans. Scientifica (Cairo). 2016;2016:1–7. doi: 10.1155/2016/1428194
   Google Scholar
• Mukherji R, Prabhune A. A new class of bacterial quorum sensing antagonists: glycomonoterpenols synthesized using linalool and alpha terpineol. World J Microbiol Biotechnol. 2015;31(6):841–849. doi: 10.1007/s11274-015-1822-5
   PubMed Web of Science ®Google Scholar
• de Araújo ACJ, Freitas PR, dos Santos Barbosa CR, et al. In Vitro and in silico inhibition of staphylococcus aureus efflux pump NorA by α-pinene and limonene. Curr Microbiol. 2021;78(9):3388–3393. doi: 10.1007/s00284-021-02611-9
   PubMed Web of Science ®Google Scholar
• Boyd SE, Livermore DM, Hooper DC, et al. Metallo-β-lactamases: structure, function, epidemiology, treatment options, and the development pipeline. Antimicrob Agents Chemother. 2020;64(10):e00397–00320. doi: 10.1128/AAC.00397-20
   PubMed Web of Science ®Google Scholar
• Vidovic N, Vidovic S. Antimicrobial resistance and food animals: influence of livestock environment on the emergence and dissemination of antimicrobial resistance. Antibiotics. 2020;9(2):52. doi: 10.3390/antibiotics9020052
   Google Scholar
• dos Santos JFS, Tintino SR, de Freitas TS, et al. In vitro e in silico evaluation of the inhibition of Staphylococcus aureus efflux pumps by caffeic and gallic acid. Comp Immunol Microbiol Infect Dis. 2018;57:22–28. doi: 10.1016/j.cimid.2018.03.001
   PubMed Web of Science ®Google Scholar
• Sivakumar S, Smiline Girija AS, Vijayashree Priyadharsini J. Evaluation of the inhibitory effect of caffeic acid and gallic acid on tetR and tetM efflux pumps mediating tetracycline resistance in Streptococcus sp., using computational approach. J King Saud Univ Sci. 2020;32(1):904–909. doi: 10.1016/j.jksus.2019.05.003
   Web of Science ®Google Scholar
• Suresh CH, Remya GS, Anjalikrishna PK. Molecular electrostatic potential analysis: A powerful tool to interpret and predict chemical reactivity. WIREs Comput Mol Sci. 2022;12(5):e1601. doi: 10.1002/wcms.1601
   Google Scholar
• Politzer P, Murray JS. The fundamental nature and role of the electrostatic potential in atoms and molecules. Theor Chem Acc. 2002;108(3):134–142. doi: 10.1007/s00214-002-0363-9
   Web of Science ®Google Scholar
• Bhattacharjee M, Banerjee M, Mukherjee A. In silico designing of a novel polyvalent multi-subunit peptide vaccine leveraging cross-immunity against human visceral and cutaneous leishmaniasis: an immunoinformatics-based approach. J Mol Model. 2023;29(4):99. doi: 10.1007/s00894-023-05503-w
   PubMed Web of Science ®Google Scholar
• Al-Karmalawy AA, Alnajjar R, Dahab M, et al. Molecular docking and dynamics simulations reveal the potential of anti-HCV drugs to inhibit COVID-19 main protease. Pharm Sci. 2021;27(Covid–19):S109–S121. doi: 10.34172/PS.2021.3
   Google Scholar