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Isolation and characterization of a novel Escherichia coli O157:H7-specific phage as a biocontrol agent

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Abstract

Purpose

Escherichia coli O157:H7 is one of the major foodborne pathogens of global public concern. Bacteriophages (phages) have emerged as a promising alternative to antibiotics for controlling pathogenic bacteria. Here, a lytic E. coli O157:H7-specific phage (KFS-EC) was isolated, identified, and characterized to evaluate its potential as a biocontrol agent for E. coli O157:H7.

Methods

KFS-EC was isolated from slaughterhouse in Korea. Morphological analysis, genomic analysis and several physiological tests were performed to identify and characterize the KFS-EC.

Results

A specificity test indicated KFS-EC was strictly specific to E. coli O157:H7 strains among 60 bacterial strains tested. Morphological and phylogenetic analyses confirmed that KFS-EC belongs to the Rb49virus genus, Tevenvirinae subfamily, and the Myoviridae family of phages. KFS-EC genome consists of 164,725 bp and a total of 270 coding sequence features, of which 114 open reading frames (ORFs) were identified as phage functional genes. KFS-EC does not contain genes encoding lysogenic property and pathogenicity, which ensure its safe application. KFS-EC was relatively stable (~1 log decrease) under stressed conditions such as temperatures (20 °C–50 °C), pHs (3–11), organic solvents (ethanol and chloroform), and biocides (0.1% citric acid, 1% citric acid, and 0.1% peracetic acid). KFS-EC was able to inhibit E. coli O157:H7 efficiently at a multiplicity of infection (MOI) of 0.01 for 8 h with greater inhibitory effect and durability and was stable at 4 °C and 22 °C over a 12-week storage period.

Conclusions

Our results suggest that KFS-EC could be used as a biocontrol agent to E. coli O157:H7.

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References

  1. Adamu MT, Shamsul BMT, Desa MN, Khairani-Bejo S. A review on Escherichia coli O157:H7-the super pathogen. Health Environ J. 2014;5:78–93.

    Google Scholar 

  2. Saxena T, Kaushik P, Mohan MK. Prevalence of E. coli O157:H7 in water sources: an overview on associated diseases, outbreaks and detection methods. Diagn Microbiol Infect Dis. 2015;82:249–64.

    Article  Google Scholar 

  3. Saeedi P, Yazdanparast M, Behzadi E, Salmanian AH, Mousavi SL, Nazarian S, et al. A review on strategies for decreasing E. coli O157:H7 risk in animals. Microb Pathog. 2017;103:186–95.

    Article  CAS  Google Scholar 

  4. Riley LW, Remis RS, Helgerson SD, McGee HB, Wells JG, Davis BR et al. Hemorrhagic colitis associated with a rare Escherichia coli serotype. N Engl J Med. 1983;308:681–5.

  5. ​Kaper JB, Nataro JP, Mobley HL. Pathogenic Escherichia coli. Nat Rev Microbiol. 2004;2:123–40.

  6. ​Majowicz SE, Scallan E, Jones-Bitton A, Sargeant JM, Stapleton J, Angulo FJ, et al. Global incidence of human Shiga toxin–producing Escherichia coli infections and deaths: a systematic review and knowledge synthesis. Foodborne Pathog Dis. 2014;11:447–55.

  7. Holvoet K, Sampers I, Callens B, Dewulf J, Uyttendaele M. Moderate prevalence of antimicrobial resistance in Escherichia coli isolates from lettuce, irrigation water, and soil. Appl Environ Microbiol. 2013;79:6677–83.

    Article  CAS  Google Scholar 

  8. Schroeder CM, Zhao C, DebRoy C, Torcolini J, Zhao S, White DG, et al. Antimicrobial resistance of Escherichia coli O157 isolated from humans, cattle, swine, and food. Appl Environ Microbiol. 2002;68:576–81.

    Article  CAS  Google Scholar 

  9. Francino MP. Antibiotics and the human gut microbiome: dysbioses and accumulation of resistances. Front Microbiol. 2016;6:1543.

    Article  Google Scholar 

  10. Choi IY, Lee J-H, Kim H-J, Park M-K. Isolation and characterization of a novel broad-host-range bacteriophage infecting Salmonella enterica subsp. enterica for biocontrol and rapid detection. J Microbiol Biotechnol. 2017;27:2151–5.

    Article  CAS  Google Scholar 

  11. Amarillas L, Chaidez C, González-Robles A, Lugo-Melchor Y, León-Félix J. Characterization of novel bacteriophage phiC119 capable of lysing multidrug-resistant Shiga toxin-producing Escherichia coli O157:H7. PeerJ. 2016;4:e2423.

    Article  CAS  Google Scholar 

  12. Oh J-H, Park M-K. Recent trends in Salmonella outbreaks and emerging technology for biocontrol of Salmonella using phages in foods: a review. J Microbiol Biotechnol. 2017;27:2075–88.

    Article  CAS  Google Scholar 

  13. Lee H, Ku H-J, Lee D-H, Kim Y-T, Shin H, Ryu S, et al. Characterization and genomic study of the novel bacteriophage HY01 infecting both Escherichia coli O157:H7 and Shigella flexneri: potential as a biocontrol agent in food. PLoS One. 2016;11:e0168985.

    Article  CAS  Google Scholar 

  14. Hudson JA, Billington C, Carey-Smith G, Greening G. Bacteriophages as biocontrol agents in food. J Food Prot. 2005;68:426–37.

    Article  CAS  Google Scholar 

  15. Carlton RM. Phage therapy: past history and future prospects. Arch Immunol Ther Exp. 1999;47:267–74.

    CAS  Google Scholar 

  16. Ackermann H-W, DuBow M, Jarvis A, Jones L, Krylov V, Maniloff J, et al. The species concept and its application to tailed phages. Arch Virol. 1992;124:69–82.

    Article  CAS  Google Scholar 

  17. Mirzaei MK, Nilsson AS. Isolation of phages for phage therapy: a comparison of spot tests and efficiency of plating analyses for determination of host range and efficacy. PLoS One. 2015;10:e0118557.

    Article  CAS  Google Scholar 

  18. Bushnell, B. BB Map 2014. https://sourceforge.net/projects/bbmap/ Accessed 14 Feb 2019.

  19. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, et al. The RAST server: rapid annotations using subsystems technology. BMC Genomics. 2008;9:75.

    Article  CAS  Google Scholar 

  20. Zhu W, Lomsadze A, Borodovsky M. Ab initio gene identification in metagenomic sequences. Nucleic Acids Res. 2010;38:e132.

    Article  CAS  Google Scholar 

  21. Arndt D, Grant JR, Marcu A, Sajed T, Pon A, Liang Y, et al. PHASTER: a better, faster version of the PHAST phage search tool. Nucleic Acids Res. 2016;44:W16–21.

    Article  CAS  Google Scholar 

  22. Chen L, Zheng D, Liu B, Yang J, Jin Q. VFDB 2016: hierarchical and refined dataset for big data analysis—10 years on. Nucleic Acids Res. 2016;44:D694–7.

    Article  CAS  Google Scholar 

  23. Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O, et al. Identification of acquired antimicrobial resistance genes. J Antimicrob Chemother. 2012;67:2640–4.

    Article  CAS  Google Scholar 

  24. McArthur AG, Waglechner N, Nizam F, Yan A, Azad MA, Baylay AJ, et al. The comprehensive antibiotic resistance database. Antimicrob Agents Chemother. 2013;57:3348–57.

    Article  CAS  Google Scholar 

  25. Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics. 2014;30:2068–9.

    Article  CAS  Google Scholar 

  26. Lefkowitz EJ, Dempsey DM, Hendrickson RC, Orton RJ, Siddell SG, Smith DB. Virus taxonomy: the database of the international committee on taxonomy of viruses (ICTV). Nucleic Acids Res. 2017;46:D708–17.

    Article  CAS  Google Scholar 

  27. Meier-Kolthoff JP, Göker M. VICTOR: genome-based phylogeny and classification of prokaryotic viruses. Bioinformatics. 2017;33:3396–404.

    Article  CAS  Google Scholar 

  28. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics. 2013;14:60.

    Article  Google Scholar 

  29. Lefort V, Desper R, Gascuel O. FastME 2.0: a comprehensive, accurate, and fast distance-based phylogeny inference program. Mol Biol Evol. 2015;32:2798–800.

    Article  CAS  Google Scholar 

  30. Farris JS. Formal definitions of paraphyly and polyphyly. Syst Zool. 1974;23:548–54.

    Article  Google Scholar 

  31. Rambaut A. FigTree-version 1.4.3, a graphical viewer of phylogenetic trees; 2017. http://tree.bio.ed.ac.uk/software/figtree/ Accessed 14 Feb 2019.

  32. Göker M, García-Blázquez G, Voglmayr H, Tellería MT, Martín MP. Molecular taxonomy of phytopathogenic fungi: a case study in Peronospora. PLoS One. 2009;4:e6319.

    Article  CAS  Google Scholar 

  33. Meier-Kolthoff JP, Hahnke RL, Petersen J, Scheuner C, Michael V, Fiebig A, et al. Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy. Stand Genomic Sci. 2014;9:2.

    Article  Google Scholar 

  34. Ackermann H-W. 5500 phages examined in the electron microscope. Arch Virol. 2007;152:227–43.

    Article  CAS  Google Scholar 

  35. Hudson JA, Billington C, Cornelius AJ, Wilson T, On SLW, Premaratne A, et al. Use of a bacteriophage to inactivate Escherichia coli O157:H7 on beef. Food Microbiol. 2013;36:14–21.

    Article  CAS  Google Scholar 

  36. Raya RR, Varey P, Oot RA, Dyen MR, Callaway TR, Edrington TS, et al. Isolation and characterization of a new T-even bacteriophage, CEV1, and determination of its potential to reduce Escherichia coli O157:H7 levels in sheep. Appl Environ Microbiol. 2006;72:6405–10.

    Article  CAS  Google Scholar 

  37. Park M, Lee J-H, Shin H, Kim M, Choi J, Kang D-H, et al. Characterization and comparative genomic analysis of a novel bacteriophage, SFP10, simultaneously inhibiting both Salmonella enterica and Escherichia coli O157: H7. Appl Environ Microbiol. 2012;78:58–69.

    Article  CAS  Google Scholar 

  38. Denou E, Bruttin A, Barretto C, Ngom-Bru C, Brüssow H, Zuber S. T4 phages against Escherichia coli diarrhea: potential and problems. Virology. 2009;388:21–30.

    Article  CAS  Google Scholar 

  39. Eppinger M, Mammel MK, Leclerc JE, Ravel J, Cebula TA. Genomic anatomy of Escherichia coli O157:H7 outbreaks. Proc Natl Acad Sci U S A. 2011;108:20142–7.

    Article  CAS  Google Scholar 

  40. Petrov VM, Ratnayaka S, Nolan JM, Miller ES, Karam JD. Genomes of the T4-related bacteriophages as windows on microbial genome evolution. Virol J. 2010;7:292.

    Article  CAS  Google Scholar 

  41. Riede I, Drexler K, Schwarz H, Henning U. T-even-type bacteriophages use an adhesin for recognition of cellular receptors. J Mol Biol. 1987;194:23–30.

    Article  CAS  Google Scholar 

  42. Hamdi S, Rousseau GM, Labrie SJ, Tremblay DM, Kourda RS, Slama KB, et al. Characterization of two polyvalent phages infecting Enterobacteriaceae. Sci Rep. 2017;7:40349.

    Article  CAS  Google Scholar 

  43. Song JY, Yoo RH, Jang SY, Seong W-K, Kim S-Y, Jeong H, et al. Genome sequence of enterohemorrhagic Escherichia coli NCCP15658. J Bacteriol. 2012;194:3749–50.

    Article  CAS  Google Scholar 

  44. Trojet SN, Caumont-Sarcos A, Perrody E, Comeau AM, Krisch HM. The gp38 adhesins of the T4 superfamily: a complex modular determinant of the phage’s host specificity. Genome Biol Evol. 2011;3:674–86.

    Article  CAS  Google Scholar 

  45. Adam E, Groenenboom AE, Kurm V, Rajewska M, Schmidt R, Tyc O, et al. Controlling the microbiome: microhabitat adjustments for successful biocontrol strategies in soil and human gut. Front Microbiol. 2016;7:1079.

    Article  Google Scholar 

  46. Loc-Carrillo C, Abedon ST. Pros and cons of phage therapy. Bacteriophage. 2011;1:111–4.

    Article  Google Scholar 

  47. Amarillas L, Rubí-Rangel L, Chaidez C, González-Robles A, Lightbourn-Rojas L, León-Félix J. Isolation and characterization of phiLLS, a novel phage with potential biocontrol agent against multidrug-resistant Escherichia coli. Front Microbiol. 2017;8:1355.

    Article  Google Scholar 

  48. Meaden S, Koskella B. Exploring the risks of phage application in the environment. Front Microbiol. 2013;4:358.

    Article  Google Scholar 

  49. Wang J, Niu YD, Chen J, Anany H, Ackermann H-W, Johnson RP, et al. Feces of feedlot cattle contain a diversity of bacteriophages that lyse non-O157 Shiga toxin-producing Escherichia coli. Can J Microbiol. 2015;61:467–75.

    Article  CAS  Google Scholar 

  50. Hayashi T, Makino K, Ohnishi M, Kurokawa K, Ishii K, Yokoyama K, et al. Complete genome sequence of enterohemorrhagic Eschelichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res. 2001;8:11–22.

    Article  CAS  Google Scholar 

  51. Weiserová M, Ryu J. Characterization of a restriction modification system from the commensal Escherichia coli strain A0 34/86 (O83:K24:H31). BMC Microbiol. 2008;8:106.

    Article  CAS  Google Scholar 

  52. Miller ES, Kutter E, Mosig G, Arisaka F, Kunisawa T, Ruger W. Bacteriophage T4 genome. Microbiol Mol Biol Rev. 2003;67:86–156.

    Article  CAS  Google Scholar 

  53. Labrie SJ, Samson JE, Moineau S. Bacteriophage resistance mechanisms. Nat Rev Microbiol. 2010;8:317–27.

    Article  CAS  Google Scholar 

  54. Verma V, Harjai K, Chhibber S. Characterization of a T7-like lytic bacteriophage of Klebsiella pneumoniae B5055: a potential therapeutic agent. Curr Microbiol. 2009;59:274–81.

    Article  CAS  Google Scholar 

  55. Suarez VB, Reinheimer JA. Effectiveness of thermal treatments and biocides in the inactivation of Argentinian Lactococcus lactis phages. J Food Prot. 2002;65:1756–9.

    Article  Google Scholar 

  56. Tomat D, Balagué C, Aquili V, Verdini R, Quiberoni A. Resistance of phages lytic to pathogenic Escherichia coli to sanitisers used by the food industry and in home settings. Int J Food Sci Technol. 2018;53:533–40.

    Article  CAS  Google Scholar 

  57. Xu Y, Yu X, Gu Y, Huang X, Liu G, Liu X. Characterization and genomic study of phage Vb_EcoS-B2 infecting multidrug-resistant Escherichia coli. Front Microbial. 2018;9:793.

    Article  Google Scholar 

  58. Peng Q, Yuan Y. Characterization of a newly isolated phage infecting pathogenic Escherichia coli and analysis of its mosaic structural genes. Sci Rep. 2018;8:8086.

    Article  CAS  Google Scholar 

  59. Kim M, Ryu S. Characterization of a T5-like coliphage, SPC35, and differential development of resistance to SPC35 in Salmonella enterica serovar Typhimurium and Escherichia coli. Appl Environ Microbiol. 2011;77:2042–50.

    Article  CAS  Google Scholar 

  60. Clark WA. Comparison of several methods for preserving bacteriophages. Appl Microbiol. 1962;10:466–71.

    Article  CAS  Google Scholar 

  61. Jończyk E, Kłak M, Międzybrodzki R, Górski A. The influence of external factors on bacteriophages-review. Folia Microbiol. 2011;56:191–200.

    Article  CAS  Google Scholar 

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Funding

This research was funded by the Basic Research Program through the National Research Foundation (NRF) of Korea founded by the Ministry of Education (NRF-2017R1D1A1B03035195).

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CL, IYC, DHP, and M-KP conducted this study, and drafted the manuscript. M-KP supervised the study in all steps. CL, IYC, and M-KP edited the manuscript. All authors read and approved the final manuscript.

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Correspondence to Mi-Kyung Park.

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Lee, C., Choi, I.Y., Park, D.H. et al. Isolation and characterization of a novel Escherichia coli O157:H7-specific phage as a biocontrol agent. J Environ Health Sci Engineer 18, 189–199 (2020). https://doi.org/10.1007/s40201-020-00452-5

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