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Yoda T, Matsuhashi A, Matsushita A, Shibagaki S, Sasakura Y, Aoki K, Hosokawa M, Tsuda S. Uncovering Endolysins against Methicillin-Resistant Staphylococcus aureus Using a Microbial Single-Cell Genome Database. ACS Infect Dis 2024; 10:2679-2689. [PMID: 38906534 PMCID: PMC11320564 DOI: 10.1021/acsinfecdis.4c00039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2024] [Revised: 04/18/2024] [Accepted: 05/22/2024] [Indexed: 06/23/2024]
Abstract
Endolysins, peptidoglycan hydrolases derived from bacteriophages (phages), are being developed as a promising alternative to conventional antibiotics. To obtain highly active endolysins, a diverse library of these endolysins is vital. We propose here microbial single-cell genome sequencing as an efficient tool to discover dozens of previously unknown endolysins, owing to its culture-independent sequencing method. As a proof of concept, we analyzed and recovered endolysin genes within prophage regions of Staphylococcus single-amplified genomes in human skin microbiome samples. We constructed a library of chimeric endolysins by shuffling domains of the natural endolysins and performed high-throughput screening against Staphylococcus aureus. One of the lead endolysins, bbst1027, exhibited desirable antimicrobial properties, such as rapid bactericidal activity, no detectable resistance development, and in vivo efficacy. We foresee that this endolysin discovery pipeline is in principle applicable to any bacterial target and boost the development of novel antimicrobial agents.
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Affiliation(s)
- Takuya Yoda
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
| | - Ayumi Matsuhashi
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
| | - Ai Matsushita
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
| | - Shohei Shibagaki
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
| | - Yukie Sasakura
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
| | - Kazuteru Aoki
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
| | - Masahito Hosokawa
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
- Department
of Life Science and Medical Bioscience, Waseda University, 2-2
Wakamatsu-cho, Shinjuku-ku, Tokyo 162-8480, Japan
- Research
Organization for Nano and Life Innovation, Waseda University, 513
Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
- Institute
for Advanced Research of Biosystem Dynamics, Waseda Research Institute for Science and Engineering, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Soichiro Tsuda
- bitBiome,
Inc., 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162-0041, Japan
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Junejo B, Solangi QA, Thani ASB, Palabiyik IM, Ghumro T, Bano N, Solangi AR, Taqvi SIH. Physical properties and pharmacological applications of Co 3O 4, CuO, NiO and ZnO nanoparticles. World J Microbiol Biotechnol 2023; 39:220. [PMID: 37269437 DOI: 10.1007/s11274-023-03657-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Accepted: 05/20/2023] [Indexed: 06/05/2023]
Abstract
Nano materials have found developing interest in biogenic approaches in the present times. In this study, metal oxide nanoparticles (NPs) such as cobalt oxide (Co3O4), copper oxide (CuO), nickel oxide (NiO) and zinc oxide (ZnO), were synthesized using a convenient and rapid method. The structural features of synthesized metal oxide NPs were studied using various microscopic and spectroscopic techniques like SEM, TEM, XRD, FTIR and EDX. The characterization results confirmed that the prepared NPs possess highly pure, unique and crystalline geometry with size ranging between 10 and 20 nm. The synthesized nanoparticles were successfully employed for pharmacological applications. Enzyme inhibition potential of NPs was evaluated against the urease and tyrosinase enzymes. The percent inhibition for the urease enzyme was observed as 80 to 90% by using Co3O4, CuO, NiO and ZnO NPs while ZnO NPs were found to have best anti-urease and anti-tyrosinase activities. Moreover, effective inhibition was observed in the case of ZnO NPs at IC50 values of 0.0833 and 0.1732 for urease and tyrosinase enzymes which were comparable to reference drugs thiourea and kojic acid. The lower the IC50 value, higher the free radical scavenging power. Antioxidant activity by DPPH free radical scavenging method was found moderately high for the synthesized metal oxide NPs while best results were obtained for Co3O4 and ZnO NPs as compared to the standard ascorbic acid. Antimicrobial potential was also evaluated via the disc diffusion and well diffusion methods. CuO NPs show a better zone of inhibition at 20 and 27 mm by using both methods. This study proves that the novel metal oxide NPs can compete with the standard materials used in the pharmacological studies nowadays.
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Affiliation(s)
- Bindia Junejo
- National Centre of Excellence in Analytical Chemistry, University of Sindh, Jamshoro, Pakistan
| | - Qamar A Solangi
- Department of Biology, College of Science, University of Bahrain, 32038, Zallaq, Bahrain
| | - Ali Salman B Thani
- Department of Biology, College of Science, University of Bahrain, 32038, Zallaq, Bahrain
| | - Ismail Murat Palabiyik
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, 06100, Ankara, Turkey
| | - Tania Ghumro
- National Centre of Excellence in Analytical Chemistry, University of Sindh, Jamshoro, Pakistan
| | - Nadia Bano
- Institute of Microbiology, Shah Abdul Latif University, Khairpur, Pakistan
| | - Amber R Solangi
- National Centre of Excellence in Analytical Chemistry, University of Sindh, Jamshoro, Pakistan.
| | - Syed Iqleem H Taqvi
- Department of Chemistry, Government College University Hyderabad, Hyderabad, Sindh, Pakistan
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Aly MRES, Saad HA, Abdel-Hafez SH. Synthesis, antimicrobial and cytotoxicity evaluation of new cholesterol congeners. Beilstein J Org Chem 2015; 11:1922-32. [PMID: 26664612 PMCID: PMC4661006 DOI: 10.3762/bjoc.11.208] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2015] [Accepted: 09/28/2015] [Indexed: 12/30/2022] Open
Abstract
3β-Azidocholest-5-ene (3) and (3β)-3-(prop-2-yn-1-yloxy)cholest-5-ene (10) were prepared as substrates to synthesize a variety of three-motif pharmacophoric conjugates through CuAAC. Basically, these conjugates included cholesterol and 1,2,3-triazole moieties, while the third, the pharmacophore, was either a chalcone, a lipophilic residue or a carbohydrate tag. These compounds were successfully prepared in good yields and characterized by NMR, MS and IR spectroscopic techniques. Chalcone conjugate 6c showed the best antimicrobial activity, while the lactoside conjugate 27 showed the best cytotoxic effect in vitro.
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Affiliation(s)
- Mohamed Ramadan El Sayed Aly
- Chemistry Department, Faculty of Science, Taif University, 21974-Hawyah-Taif, Kingdom of Saudi Arabia
- Chemistry Department, Faculty of Applied Science, Port Said University, 42522-Port Said, Egypt
| | - Hosam Ali Saad
- Chemistry Department, Faculty of Science, Taif University, 21974-Hawyah-Taif, Kingdom of Saudi Arabia
- Chemistry Department, Faculty of Science, Zagazig University, Zagazig, 44511, Egypt
| | - Shams Hashim Abdel-Hafez
- Chemistry Department, Faculty of Science, Taif University, 21974-Hawyah-Taif, Kingdom of Saudi Arabia
- Chemistry Department, Faculty of Science, Assuit University, 71516-Assuit, Egypt
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Stenholm T, Hakanen AJ, Hakanen E, Härmä H, Österblad M, Vuopio J, Hänninen PE, Huovinen P, Rankakokko-Jalava K, Kotilainen P. High-throughput screening of colonization samples for methicillin-resistant Staphylococcus aureus. ACTA ACUST UNITED AC 2013; 45:922-9. [PMID: 24090458 DOI: 10.3109/00365548.2013.831182] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
BACKGROUND We present here the first application of 2-photon excited fluorescence detection (TPX) technology for the direct screening of clinical colonization samples for methicillin-resistant Staphylococcus aureus (MRSA). METHODS A total of 125 samples from 14 patients with previously identified MRSA carriage and 16 controls from low-prevalence settings were examined. RESULTS The results were compared to those obtained by both standard phenotypic and molecular methods. In identifying MRSA carriers, i.e. persons with at least 1 MRSA positive colonization sample by standard methods, the sensitivity of the TPX technique was 100%, the specificity 78%, the positive predictive value 75%, and the negative predictive value 100%. The TPX assay sensitivity per colonization sample was 89%, the specificity 93%, the positive predictive value 84%, and the negative predictive value 95%. The median time for a true-positive test result was 3 h and 26 min; negative test results are available after 13 h. The assay capacity was 48 samples per test run. CONCLUSIONS The TPX MRSA technique could provide early preliminary results for clinicians, while simultaneously functioning as a selective enrichment step for further conventional testing. Costs and workload associated with hospital infection control can be reduced using this high-throughput, point-of-care compatible methodology.
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Affiliation(s)
- Teppo Stenholm
- From the Department of Medicine, Turku University Hospital and University of Turku
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Impedimetric detection of single-stranded PCR products derived from methicillin resistant Staphylococcus aureus (MRSA) isolates. Biosens Bioelectron 2012; 34:178-84. [DOI: 10.1016/j.bios.2012.01.040] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2011] [Revised: 01/25/2012] [Accepted: 01/29/2012] [Indexed: 11/21/2022]
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Evaluation of the TPX MRSA assay for the detection of methicillin-resistant Staphylococcus aureus. Eur J Clin Microbiol Infect Dis 2011; 30:1237-43. [DOI: 10.1007/s10096-011-1218-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2011] [Accepted: 03/03/2011] [Indexed: 10/18/2022]
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te Witt R, van Belkum A, van Leeuwen WB. Molecular diagnostics and genotyping of MRSA: an update. Expert Rev Mol Diagn 2010; 10:375-80. [PMID: 20465491 DOI: 10.1586/erm.10.34] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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