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Characterization and complete genome sequence of the virulent phage ST20 infecting Escherichia coli O165:H8

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Abstract

A virulent phage, named ST20, infecting Escherichia coli O165:H8 was isolated from wastewater and subjected to genomic sequencing using the Illumina HiSeq system. Genomic analysis revealed that it contains double-stranded DNA, and its complete genome consists of 44,517 nucleotides with an average GC content of 50.81%. Morphological observations showed that phage ST20 belongs to the order Caudovirales and the family Siphoviridae due to its characteristic icosahedral capsid and a long noncontractile tail. This phage was further characterized by one-step growth curve analysis and measurement of its stability at 4 °C. The study has implications for the development of potential biocontrol agents.

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References

  1. Bentley R, Meganathan R (1982) Biosynthesis of vitamin K (menaquinone) in bacteria. Microbiol Rev 46(3):241–280

    CAS  PubMed  PubMed Central  Google Scholar 

  2. White A, Cronquist A, Bedrick EJ, Scallan E (2016) Food source prediction of shiga toxin-producing Escherichia coli outbreaks using demographic and outbreak characteristics, United States, 1998–2014. Foodborne Pathog Dis 13(10):527–534

    Article  CAS  Google Scholar 

  3. Rohde H, Qin J, Cui Y et al (2011) Open-source genomic analysis of Shiga-toxin-producing E. coli O104:H4. N Engl J Med 365(8):718–724

    Article  CAS  Google Scholar 

  4. Centers for Disease Control and Prevention (CDC) (2009) Ongoing multistate outbreak of Escherichia coli serotype O157:H7 infections associated with consumption of fresh Spinach-United States, September 2006. Morb Mortal Wkly Rep 55(38):1045–1046

    Google Scholar 

  5. Ifeanyi C, Ikeneche N, Bassey B, Morabito S, Graziani C, Caprioli A (2017) Molecular and phenotypic typing of enteropathogenic Escherichia coli isolated in childhood acute diarrhea in Abuja, Nigeria. J Infect Dev Ctries. 11(7):527–535

    Article  CAS  Google Scholar 

  6. Mellmann A, Harmsen D, Cummings CA, Zentz EB et al (2011) Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology. PLoS One 6(7):e22751. https://doi.org/10.1371/journal.pone.0022751

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  7. Ahmed MN, Vannoy D, Frederick A (2016) Antimicrobial of Escherichia coli in children with urinary tract infection in emergency department and primary care clinics. Clin Pediatr 55(1):19–28

    Article  Google Scholar 

  8. Zahra N, Rehman K, Aqeel R et al (2016) Assessment of urinary tract infection and their resistance to antibiotics in diabetic and non-diabetic patients. Bangabandhu Sheikh Mujib Med Univ J 9(3):151

    Article  Google Scholar 

  9. Sorlozano A, Jimenez-Pacheco A, del Castillo JDL et al (2014) Evolution of the resistance to antibiotics of bacteria involved in urinary tract infections: a 7-year surveillance study. Am J Infect Control 42:1033–1038

    Article  Google Scholar 

  10. Laxminarayan R, Duse A, Wattal C, Zaidi AKM et al (2013) Antibiotic resistance-the need for global solutions. Lancet Infect Dis 13(12):1057–1098

    Article  Google Scholar 

  11. Pirnay JP, Blasdel BG, Bretaudeau L et al (2015) Quality and safety requirements for sustainable phage therapy products. Pharm Res 32(7):2173–2179

    Article  CAS  Google Scholar 

  12. Peng Q, Yuan Y (2018) Characterization of a newly isolated phage infecting pathogenic Escherichia coli and analysis of its mosaic structural genes. Sci Rep 8:8086. https://doi.org/10.1038/s41598-018-26004-4

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  13. Pires D, Melo L, Vilas Boas D, Sillankorva S, Azeredo J (2017) Phage therapy as an alternative or complementary strategy to prevent and control biofilm-related infections. Curr Opin Microbiol 39:48–56

    Article  CAS  Google Scholar 

  14. Goodridge LD, Bisha B (2011) Phage-based biocontrol strategies to reduce foodborne pathogens in foods. Bacteriophage 1(3):130–137

    Article  Google Scholar 

  15. Hudson J, Billington C, Carey-Smith G, Greening G (2005) Bacteriophages as biocontrol agents in food. J Food Protect 68(2):426–437

    Article  CAS  Google Scholar 

  16. El-Shibiny A, El-Sahhar S, Adel M (2017) Phage applications for improving food safety and infection control in Egypt. J Appl Microb 123(2):556–567

    Article  CAS  Google Scholar 

  17. Bren L (2007) Bacteria-eating virus approved as food additive. FDA Consum 41(1):20–22

    PubMed  Google Scholar 

  18. Adams MH (1959) Bacteriophages. Interscience Publishers, London

    Google Scholar 

  19. Green MR, Sambrook J (2012) Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press Cold Spring Harbor, New York

    Google Scholar 

  20. Arndt D, Grant JR, Marcu A et al (2016) PHASTER: a better, faster version of the PHAST phage search tool. Nucleic Acids Res. https://doi.org/10.1093/nar/gkw387

    Article  PubMed  PubMed Central  Google Scholar 

  21. Lowe TM, Chan PP (2016) tRNAscan-SE On-line: search and contextual analysis of transfer RNA genes. Nucleic Acids Res 44:W54–W57

    Article  CAS  Google Scholar 

  22. Koichiro T, Daniel P, Nicholas P et al (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28(10):2731–2739

    Article  Google Scholar 

  23. Grant JR, Stothard P (2008) The CGView Server: a comparative genomics tool for circular genomes. Nucleic Acids Res 36:W181–W184

    Article  CAS  Google Scholar 

  24. Liu H, Geagea H, Rousseau GM et al (2018) Characterization of the Escherichia coli virulent myophage ST32. Viruses 10(11):616. https://doi.org/10.3390/v10110616

    Article  CAS  PubMed Central  Google Scholar 

  25. Bull JJ, Vim ER, Molineux IJ (2010) A tale of tails: Sialidase is key to success in a model of phage therapy against K1-capsulated Escherichia coli. Virol. 398(1):79–86

    Article  CAS  Google Scholar 

  26. Young R (2014) Phage lysis: three steps, three choices, one outcome. J Microbiol 52(3):243–258

    Article  CAS  Google Scholar 

  27. Saier MH, Reddya BL (2015) Holins in bacteria, eukaryotes, and archaea: multifunctional xenologues with potential biotechnological and biomedical applications. J Bacteriol 197:7–17. https://doi.org/10.1128/JB.02046-14

    Article  CAS  PubMed  Google Scholar 

  28. Roach DR, Donovan DM (2015) Antimicrobial bacteriophage-derived proteins and therapeutic applications. Bacteriophage 5(3):00–00

    Article  CAS  Google Scholar 

  29. Abdelkader K, Gerstmans H, Saafan A, Dishisha T, Briers Y (2019) The preclinical and clinical progress of bacteriophages and their lytic enzymes: the parts are easier than the whole. Viruses 11:96

    Article  CAS  Google Scholar 

  30. Payne KM, Hatfull GF (2012) Mycobacteriophage endolysins: diverse and modular enzymes with multiple catalytic activities. PLoS One 7(3):e34052. https://doi.org/10.1371/journal.pone.0034052

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  31. Sváb D, Falgenhauer L, Rohde M et al (2018) Identification and characterization of T5-Like bacteriophages representing two novel subgroups from food products. Front Microbiol 9:202. https://doi.org/10.3389/fmicb.2018.00202

    Article  PubMed  PubMed Central  Google Scholar 

  32. Ji J, Zhang R, Jiao N (2015) Complete genome sequence of Roseophage vB_DshP-R1, which infects Dinoroseobacter shibae DFL12. Stand Genomic Sci 10:6. https://doi.org/10.1186/1944-3277-10-6

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  33. Łobocka M, Hejnowicz MS, Gągała U et al (2014) The first step to bacteriophage therapy-how to choose the correct phage. In: Borysowski J, Międzybrodzki R, Górski A (eds) Phage therapy: current research and applications. Caister Academic Press, Norfolk, pp 23–67

    Google Scholar 

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Acknowledgments

We wish to thank Yanwen Xiong of the Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, China, for supplying Escherichia coli O165:H8. We also wish to thank Miss Jingnan Liang of the Institute of Microbiology, Chinese Academy of Sciences, for her assistance in TEM sample preparation.

Funding

This study was funded by grants from the National Natural Science Foundation of China (No. 50978250 and No. 51378485).

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Authors and Affiliations

  1. College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, China

    Honghui Liu, Min Lu & Xinchun Liu

Authors
  1. Honghui Liu
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  2. Min Lu
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Contributions

H.L. and X.L. conceived and designed the experiments. H.L. performed the experiments and analyzed the data. H.L., M.L., and X.L. wrote and corrected the draft. All authors reviewed the manuscript.

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Correspondence to Xinchun Liu.

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Liu, H., Lu, M. & Liu, X. Characterization and complete genome sequence of the virulent phage ST20 infecting Escherichia coli O165:H8. Arch Virol 164, 3115–3119 (2019). https://doi.org/10.1007/s00705-019-04399-3

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  • DOI: https://doi.org/10.1007/s00705-019-04399-3

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