Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress

Engin KOÇAK, (Hacettepe University Faculty of Pharmacy, Department of Analytical Chemistry, Ankara, Turkey)
Ceren KOÇAK (Hacettepe University Faculty of Pharmacy, Department of Pharmaceutical Microbiology, Ankara, Turkey)
Turkish Journal of Pharmaceutical Sciences
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Yıl: 2021 Cilt: 18 Sayı: 2 Sayfa Aralığı: 21 - 26 Metin Dili: İngilizce DOI: 10.4274/tjps.galenos.2020.47704 İndeks Tarihi: 13-01-2022

Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress

Öz:
Objectives: In the present study, proteomics was utilized to evaluate changes in Escherichia coli proteins in response to ofloxacin to understand the mechanism of action of ofloxacin and the mechanisms of ofloxacin resistance in E. coli. Materials and Methods: Proteomics analysis of E. coli was performed by using liquid chromatography quadrupole time-of-flight mass spectrometry followed by a data processing step using MaxQuant. Functional classification and pathway analysis showed a systematic effect of ofloxacin over E. coli proteome structure. Results: In total, 649 common proteins were identified in the untreated and ofloxacin-treated groups, while 98 proteins were significantly different in the ofloxacin-treated group. Functional classification and pathway analysis showed that ofloxacin has a systematic effect over ribosomal processes, energy pathways (tricarboxylic acid cycle and glycolysis), membrane proteins, microbial targets, and biofilm formation. Conclusion: The results showed that ofloxacin affected many cellular processes and pathways. In addition, proteomic analysis revealed that E. coli develops resistance mechanism with different biological processes
Anahtar Kelime:

Ofloksasin Stresi Altında Escherichia coli’nin Karşılaştırmalı Proteomik Analizi

Öz:
Amaç: Bu çalışmada ofloksasinin etki mekanizmasına karşı yanıt olarak Escherichia coli proteinlerinde görülen değikliklerin belirlenmesi ve E. coli’deki oflotoksin direnç mekanizmalarının değerlendirilmesi için proteomiks kullanılmıştır. Gereç ve Yöntemler: E. coli’nin proteomik analizi sıvı kromatografisi/kuadrupol uçuş zamanlı kütle spektroskopisi kullanarak gerçekleştirilmiş ve sonrasında veri prosesleme aşaması MaxQuant kullanarak yapılmıştır. İşlevsel sınıflandırma ve yolak analizi oflotoksinin E. coli’nin proteome yapısına sistematik bir etkisinin olduğunu göstermiştir. Bulgular: Çalışmada 649 tane sıklıkla rastlanan proteinin yapısı oflotoksin ile muamele edilen ve edilmeyen gruplarda belirlenirken, 98 proteinin oflotoksin ile muamele gören grupta belirgin derecede farklı olduğunu göstermiştir. İşlevsel sınıflandırma ve yolak analizi oflotoksinin ribosomal prosesler, enerji yolakları (trikarboksilik asit siklusu ve glikoliz), membran proteinleri, mikrobiyal hedefler ve biofilm oluşumu üzerine sistematik bir etkisinin olduğunu göstermiştir. Sonuç: Bu sonuçlar ofloksasinin birçok hücresel prosesi ve yolağı etkilediğini göstermiştir. Ayrıca, proteomik analizler E. coli’nin farklı biyolojik prosesler ile direnç mekanizması geliştirdiğini göstermiştir.
Anahtar Kelime:

Belge Türü: Makale Makale Türü: Araştırma Makalesi Erişim Türü: Erişime Açık
  • Golkar Z, Bagasra O, Pace DG. Bacteriophage therapy: a potential solution for the antibiotic resistance crisis. J Infect Dev Ctries. 2014;8:129-136.
  • Ventola CL. The antibiotic resistance crisis: part 1: causes and threats. P T. 2015;40:277-283.
  • Munita JM, Arias CA. Mechanisms of Antibiotic Resistance. Microbiol Spectr. 2016;4.
  • Cohen A, Bont L, Engelhard D, Moore E, Fernández D, KreisbergGreenblatt R, Oved K, Eden E, Hays JP. A multifaceted ‘omics’ approach for addressing the challenge of antimicrobial resistance. Future Microbiol. 2015;10:365-376.
  • Vranakis I, Goniotakis I, Psaroulaki A, Sandalakis V, Tselentis Y, Gevaert K, Tsiotis G. Proteome studies of bacterial antibiotic resistance mechanisms. J Proteomics. 2014;97:88-99.
  • Pérez-Llarena FJ, Bou G. Proteomics as a tool for studying bacterial virulence and antimicrobial resistance. Front Microbiol. 2016;7:410.
  • Lima TB, Pinto MF, Ribeiro SM, de Lima LA, Viana JC, Gomes Júnior N, de Souza Cândido E, Dias SC, Franco OL. Bacterial resistance mechanism: what proteomics can elucidate. FASEB J. 2013;27:1291-1303.
  • Blondeau JM. Fluoroquinolones: mechanism of action, classification, and development of resistance. Surv Ophthalmol. 2004;49(Suppl 2):S73-S78.
  • Hooper DC. Mechanisms of action of antimicrobials: focus on fluoroquinolones. Clin Infect Dis. 2001;32(Suppl 1):S9-S15.
  • Liu X, Zhang H, Li L, Fu C, Tu C, Huang Y, Wu L, Tang J, Luo Y, Christie P. Levels, distributions and sources of veterinary antibiotics in the sediments of the Bohai Sea in China and surrounding estuaries. Mar Pollut Bull. 2016;109:597-602.
  • Zhao S, Liu X, Cheng D, Liu G, Liang B, Cui B, Bai J. Temporal-spatial variation and partitioning prediction of antibiotics in surface water and sediments from the intertidal zones of the Yellow River Delta, China. Sci Total Environ. 2016;569-570:1350-1358.
  • CLSI. Methods for dilution antimicrobial susceptibility tests for bacteria that grow aerobically; approved standard. 10th ed. CLSI document M07-A10.: Wayne, PA: Clinical and Laboratory Standards Institute; 2015.
  • EUCAST. Recommendations for MIC determination of colistin ( polymyxin E ) As recommended by the joint CLSI-EUCAST Polymyxin Breakpoints Working Group. 2016. Available from: http://www. bioconnections.co.uk/files/merlin/Recommendations_for_MIC_ determination_of_colistin_March_2016.pdf
  • Lin XM, Yang JN, Peng XX, Li H. A novel negative regulation mechanism of bacterial outer membrane proteins in response to antibiotic resistance. J Proteome Res. 2010;9:5952-5959.
  • Li H, Zhang DF, Lin XM, Peng XX. Outer membrane proteomics of kanamycin-resistant Escherichia coli identified MipA as a novel antibiotic resistance-related protein. FEMS Microbiol Lett. 2015;362:fnv074.
  • Jones AK, Woods AL, Takeoka KT, Shen X, Wei JR, Caughlan RE, Dean CR. Determinants of antibacterial spectrum and resistance potential of the elongation factor g inhibitor argyrin b in key gram-negative pathogens. Antimicrob Agents Chemother. 2017;61:e02400-e02406.
  • Koch A, Mizrahi V, Warner DF. The impact of drug resistance on Mycobacterium tuberculosis physiology: what can we learn from rifampicin? Emerg Microbes Infect. 2014;3:e17.
  • Karas VO, Westerlaken I, Meyer AS. The DNA-Binding Protein from Starved Cells (Dps) Utilizes Dual Functions To Defend Cells against Multiple Stresses. J Bacteriol. 2015;197:3206-3215.
  • Piras C, Soggiu A, Greco V, Martino PA, Del Chierico F, Putignani L, Urbani A, Nally JE, Bonizzi L, Roncada P. Mechanisms of antibiotic resistance to enrofloxacin in uropathogenic Escherichia coli in dog. J Proteomics. 2015;127:365-376.
  • Pesek J, Büchler R, Albrecht R, Boland W, Zeth K. Structure and mechanism of iron translocation by a Dps protein from Microbacterium arborescens. J Biol Chem. 2011;286:34872-34882.
  • Mills SD, Eakin AE, Buurman ET, Newman JV, Gao N, Huynh H, Johnson KD, Lahiri S, Shapiro AB, Walkup GK, Yang W, Stokes SS. Novel bacterial NAD+-dependent DNA ligase inhibitors with broadspectrum activity and antibacterial efficacy in vivo. Antimicrob Agents Chemother. 2011;55:1088-1096.
  • Murphy-Benenato K, Wang H, McGuire HM, Davis HE, Gao N, Prince DB, Jahic H, Stokes SS, Boriack-Sjodin PA. Identification through structure-based methods of a bacterial NAD(+)-dependent DNA ligase inhibitor that avoids known resistance mutations. Bioorg Med Chem Lett. 2014;24:360-366.
  • Li G, Young KD. Indole production by the tryptophanase TnaA in Escherichia coli is determined by the amount of exogenous tryptophan. Microbiology. 2013;159:402-410.
  • Lee J JA, Wood TK, Jayamaran A. Indole is an inter-species biofilm signal mediated by SdiA. BMC Microbiol. 2007;7:42.
  • Ahmad Z, Okafor F, Azim S, Laughlin TF. ATP synthase: a molecular therapeutic drug target for antimicrobial and antitumor peptides. Curr Med Chem. 2013;20:1956-1973.
  • Rosato RR, Fernandez R, Paz LI, Singh CR, Rosato AE. TCA cyclemediated generation of ROS is a key mediator for HeR-MRSA survival under beta-lactam antibiotic exposure. PLoS One. 2014;9:e99605.
  • Qin TT, Kang HQ, Ma P, Li PP, Huang LY, Gu B. SOS response and its regulation on the fluoroquinolone resistance. Ann Transl Med. 2015;3:358
APA Kocak E, Ozkul Kocak C (2021). Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. , 21 - 26. 10.4274/tjps.galenos.2020.47704
Chicago Kocak Engin,Ozkul Kocak Ceren Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. (2021): 21 - 26. 10.4274/tjps.galenos.2020.47704
MLA Kocak Engin,Ozkul Kocak Ceren Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. , 2021, ss.21 - 26. 10.4274/tjps.galenos.2020.47704
AMA Kocak E,Ozkul Kocak C Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. . 2021; 21 - 26. 10.4274/tjps.galenos.2020.47704
Vancouver Kocak E,Ozkul Kocak C Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. . 2021; 21 - 26. 10.4274/tjps.galenos.2020.47704
IEEE Kocak E,Ozkul Kocak C "Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress." , ss.21 - 26, 2021. 10.4274/tjps.galenos.2020.47704
ISNAD Kocak, Engin - Ozkul Kocak, Ceren. "Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress". (2021), 21-26. https://doi.org/10.4274/tjps.galenos.2020.47704
APA Kocak E, Ozkul Kocak C (2021). Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. Turkish Journal of Pharmaceutical Sciences, 18(2), 21 - 26. 10.4274/tjps.galenos.2020.47704
Chicago Kocak Engin,Ozkul Kocak Ceren Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. Turkish Journal of Pharmaceutical Sciences 18, no.2 (2021): 21 - 26. 10.4274/tjps.galenos.2020.47704
MLA Kocak Engin,Ozkul Kocak Ceren Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. Turkish Journal of Pharmaceutical Sciences, vol.18, no.2, 2021, ss.21 - 26. 10.4274/tjps.galenos.2020.47704
AMA Kocak E,Ozkul Kocak C Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. Turkish Journal of Pharmaceutical Sciences. 2021; 18(2): 21 - 26. 10.4274/tjps.galenos.2020.47704
Vancouver Kocak E,Ozkul Kocak C Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress. Turkish Journal of Pharmaceutical Sciences. 2021; 18(2): 21 - 26. 10.4274/tjps.galenos.2020.47704
IEEE Kocak E,Ozkul Kocak C "Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress." Turkish Journal of Pharmaceutical Sciences, 18, ss.21 - 26, 2021. 10.4274/tjps.galenos.2020.47704
ISNAD Kocak, Engin - Ozkul Kocak, Ceren. "Comparative Proteomic Analysis of Escherichia coli Under Ofloxacin Stress". Turkish Journal of Pharmaceutical Sciences 18/2 (2021), 21-26. https://doi.org/10.4274/tjps.galenos.2020.47704
Sayfa Oluşturulma Tarihi
23-04-2024 21:0

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