Abstract
Most published methods for bacteriophage culture and purification have been developed around the needs of laboratory-scale production. As the use of phages as antibacterials continues to develop, phages infecting a diverse array of bacteria will need to be produced and purified economically at large scales. Historically, the hosts used for the propagation of phages infecting pathogenic bacteria have been selected largely out of necessity, but the choice of phage propagation hosts can influence the safety, economics, and scalability of phage cultures. This chapter will cover some of the basics of phage propagation and the means by which the choice of propagation host may improve culture yield, biological safety, and downstream purification processes.
References
Ahern SJ, Das M, Bhowmick TS, Young R, Gonzalez CF (2014) Characterization of novel virulent broad-host-range phages of Xylella fastidiosa and Xanthomonas. J Bacteriol 196:459–471. https://doi.org/10.1128/JB.01080-13
Akhter S, Aziz RK, Edwards RA (2012) PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies. Nucleic Acids Res 40:e126. https://doi.org/10.1093/nar/gks406
Ara K, Ozaki K, Nakamura K, Yamane K, Sekiguchi J, Ogasawara N (2007) Bacillus minimum genome factory: effective utilization of microbial genome information. Biotechnol Appl Biochem 46:169–178. https://doi.org/10.1042/BA20060111
Arndt D, Grant JR, Marcu A, Sajed T, Pon A, Liang Y, Wishart DS (2016) PHASTER: a better, faster version of the PHAST phage search tool. Nucleic Acids Res 44:W16-21. https://doi.org/10.1093/nar/gkw387
Bos MP, Tommassen J (2005) Viability of a capsule- and lipopolysaccharide-deficient mutant of Neisseria meningitidis. Infect Immun 73:6194–6197. https://doi.org/10.1128/IAI.73.9.6194-6197.2005
Bryan D, El-Shibiny A, Hobbs Z, Porter J, Kutter EM (2016) Bacteriophage T4 infection of stationary phase E. coli: life after log from a phage perspective. Front Microbiol 7:1391. https://doi.org/10.3389/fmicb.2016.01391
Carlton RM, Noordman WH, Biswas B, de Meester ED, Loessner MJ (2005) Bacteriophage P100 for control of Listeria monocytogenes in foods: genome sequence, bioinformatic analyses, oral toxicity study, and application. Regul Toxicol Pharmacol 43:301–312
Christie GE, Calendar R (2016) Bacteriophage P2. Bacteriophage 6:e1145782. https://doi.org/10.1080/21597081.2016.1145782
de Sousa AL et al (2018) PhageWeb – web interface for rapid identification and characterization of prophages in bacterial genomes. Front Genet 9:644. https://doi.org/10.3389/fgene.2018.00644
Dedrick RM, Guerrero-Bustamante, C. A Garlena RA, Russell DA, Ford K, Harris K, Gilmour KC, Soothill J, Jacobs-Sera D, Schooley RT, Hatfull GF, Spencer H (2019) Engineered bacteriophages for treatment of a patient with a disseminated drug resistant Mycobacterium abscessus. Nat Med 25:730–733
El-Arabi TF, Griffiths MW, She YM, Villegas A, Lingohr EJ, Kropinski AM (2013) Genome sequence and analysis of a broad-host range lytic bacteriophage that infects the Bacillus cereus group. Virol J 10:48. https://doi.org/10.1186/1743-422X-10-48
Euler CW, Juncosa B, Ryan PA, Deutsch DR, McShan WM, Fischetti VA (2016) Targeted curing of all lysogenic bacteriophage from Streptococcus pyogenes using a novel counter-selection technique. PLoS One 11:e0146408. https://doi.org/10.1371/journal.pone.0146408
Green BD, Battisti L, Koehler TM, Thorne CB, Ivins BE (1985) Demonstration of a capsule plasmid in Bacillus anthracis. Infect Immun 49:291–297
Hadas H, Einav M, Fishov I, Zaritsky A (1997) Bacteriophage T4 development depends on the physiology of its host Escherichia coli. Microbiology 143(Pt 1):179–185
Heider SA, Wendisch VF (2015) Engineering microbial cell factories: metabolic engineering of Corynebacterium glutamicum with a focus on non-natural products. Biotechnol J 10:1170–1184. https://doi.org/10.1002/biot.201400590
Hopkins DL (1989) Xylella fastidiosa: xylem-limited bacterial pathogen of plants. Annu Rev Phytopathol 27:271–290. https://doi.org/10.1146/annurev.py.27.090189.001415
Jacobs-Sera D et al (2012) On the nature of mycobacteriophage diversity and host preference. Virology 434:187–201. https://doi.org/10.1016/j.virol.2012.09.026
James BW, Williams A, Marsh PD (2000) The physiology and pathogenicity of Mycobacterium tuberculosis grown under controlled conditions in a defined medium. J Appl Microbiol 88:669–677
Kutter E et al (1994) Effects of bacterial growth conditions and physiology on T4 infection. In: Karam J (ed) Molecular biology of bacteriophage T4. ASM Press, Washington, DC, pp 406–418
Lima-Mendez G, Van Helden J, Toussaint A, Leplae R (2008) Prophinder: a computational tool for prophage prediction in prokaryotic genomes. Bioinformatics 24:863–865. https://doi.org/10.1093/bioinformatics/btn043
Lindsay JA, Ruzin A, Ross HF, Kurepina N, Novick RP (1998) The gene for toxic shock toxin is carried by a family of mobile pathogenicity islands in Staphylococcus aureus. Mol Microbiol 29:527–543
Mamat U et al (2015) Detoxifying Escherichia coli for endotoxin-free production of recombinant proteins. Microb Cell Factories 14:57. https://doi.org/10.1186/s12934-015-0241-5
Mark GK, Gerald WP (1999) Potential biological weapons threats. Emerg Infect Dis 5:523. https://doi.org/10.3201/eid0504.990411
McCallin S et al (2013) Safety analysis of a Russian phage cocktail: from metagenomic analysis to oral application in healthy human subjects. Virology 443:187–196. https://doi.org/10.1016/j.virol.2013.05.022
Merabishvili M et al (2009) Quality-controlled small-scale production of a well-defined bacteriophage cocktail for use in human clinical trials. PLoS One 4:e4944. https://doi.org/10.1371/journal.pone.0004944
Moffatt JH et al (2010) Colistin resistance in Acinetobacter baumannii is mediated by complete loss of lipopolysaccharide production. Antimicrob Agents Chemother 54:4971–4977. https://doi.org/10.1128/AAC.00834-10
Muroi M, Tanamoto K (2006) Structural regions of MD-2 that determine the agonist-antagonist activity of lipid IVa. J Biol Chem 281:5484–5491. https://doi.org/10.1074/jbc.M509193200
Nanda AM, Thormann K, Frunzke J (2015) Impact of spontaneous prophage induction on the fitness of bacterial populations and host-microbe interactions. J Bacteriol 197:410–419. https://doi.org/10.1128/JB.02230-14
Novick RP, Subedi A (2007) The SaPIs: mobile pathogenicity islands of Staphylococcus. Chem Immunol Allergy 93:42–57. https://doi.org/10.1159/000100857
Park BS, Song DH, Kim HM, Choi BS, Lee H, Lee JO (2009) The structural basis of lipopolysaccharide recognition by the TLR4-MD-2 complex. Nature 458:1191–1195. https://doi.org/10.1038/nature07830
Pezard C, Berche P, Mock M (1991) Contribution of individual toxin components to virulence of Bacillus anthracis. Infect Immun 59:3472–3477
Pirnay JP et al (2011) The phage therapy paradigm: pret-a-porter or sur-mesure? Pharm Res 28:934–937. https://doi.org/10.1007/s11095-010-0313-5
Posfai G et al (2006) Emergent properties of reduced-genome Escherichia coli. Science 312:1044–1046. https://doi.org/10.1126/science.1126439
Raetz CR, Whitfield C (2002) Lipopolysaccharide endotoxins. Annu Rev Biochem 71:635–700. https://doi.org/10.1146/annurev.biochem.71.110601.135414
Rustad M, Eastlund A, Jardine P, Noireaux V (2018) Cell-free TXTL synthesis of infectious bacteriophage T4 in a single test tube reaction. Synth Biol 3. https://doi.org/10.1093/synbio/ysy002
Schrader HS, Schrader JO, Walker JJ, Wolf TA, Nickerson KW, Kokjohn TA (1997) Bacteriophage infection and multiplication occur in Pseudomonas aeruginosa starved for 5 years. Can J Microbiol 43:1157–1163
Shin J, Jardine P, Noireaux V (2012) Genome replication, synthesis, and assembly of the bacteriophage T7 in a single cell-free reaction. ACS Synth Biol 1:408–413. https://doi.org/10.1021/sb300049p
Smeulders MJ, Keer J, Speight RA, Williams HD (1999) Adaptation of Mycobacterium smegmatis to stationary phase. J Bacteriol 181:270–283
Steeghs L, de Cock H, Evers E, Zomer B, Tommassen J, van der Ley P (2001) Outer membrane composition of a lipopolysaccharide-deficient Neisseria meningitidis mutant. EMBO J 20:6937–6945. https://doi.org/10.1093/emboj/20.24.6937
Storms ZJ, Brown T, Cooper DG, Sauvageau D, Leask RL (2014) Impact of the cell life-cycle on bacteriophage T4 infection. FEMS Microbiol Lett 353:63–68
Summer EJ et al (2010) Genomic and biological analysis of phage Xfas53 and related prophages of Xylella fastidiosa. J Bacteriol 192:179–190. https://doi.org/10.1128/JB.01174-09
van der Els S, James JK, Kleerebezem M, Bron PA (2018) Versatile Cas9-driven subpopulation selection toolbox for Lactococcus lactis. Appl Environ Microbiol 84. https://doi.org/10.1128/AEM.02752-17
Villarroel J, Larsen MV, Kilstrup M, Nielsen M (2017) Metagenomic analysis of therapeutic PYO phage cocktails from 1997 to 2014. Viruses 9:328. https://doi.org/10.3390/v9110328
Watkins HC et al (2017) Safe recombinant outer membrane vesicles that display M2e Elicit heterologous influenza protection. Mol Ther 25:989–1002. https://doi.org/10.1016/j.ymthe.2017.01.010
Zhang G, Meredith TC, Kahne D (2013) On the essentiality of lipopolysaccharide to Gram-negative bacteria. Curr Opin Microbiol 16:779–785. https://doi.org/10.1016/j.mib.2013.09.007
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Gill, J.J. (2020). The Selection and Optimization of Phage Hosts. In: Harper, D., Abedon, S., Burrowes, B., McConville, M. (eds) Bacteriophages. Springer, Cham. https://doi.org/10.1007/978-3-319-40598-8_24-1
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DOI: https://doi.org/10.1007/978-3-319-40598-8_24-1
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