Abstract
We performed an in-depth computational image analysis of the baseplate-tail complex of the M4 vibriophage and identified seven major densities in its baseplate, which notably share structural similarities with baseplate modules of a number of other bacteriophages belonging to different species. Employing computational analysis, we explained the helical organization of the sheath protein, wrap** the tail tube. Based on the results obtained in this work along with the proteomics information published previously, we are able to decipher the plausible roles assigned to the different components of the M4 baseplate during infection of the host.
References
Sjölund-Karlsson M, Reimer A, Folster JP, Walker M, Dahourou GA, Batra DG, Martin I, Joyce K, Parsons MB, Boncy J, Whichard JM, Gilmour MW (2011) Drug resistance mechanisms in Vibrio cholerae O1 outbreak strain, Haiti, 2010. Emerg Infect Dis J 17:22. https://doi.org/10.3201/eid1711.110720
López D, Vlamakis H, Kolter R (2010) Biofilms. Cold Spring Harb Perspect Biol 2(7):a000398. https://doi.org/10.1101/cshperspect.a000398
Hall-Stoodley L, Costerton JW, Stoodley P (2004) Bacterial biofilms: from the natural environment to infectious diseases. Nat Rev Microbiol 2(2):95–108. https://doi.org/10.1038/nrmicro821
Das S, Dutta M, Sen A, Ghosh AN (2019) Structural analysis and proteomics studies on the Myoviridae vibriophage M4. Arch Virol 164(2):523–534. https://doi.org/10.1007/s00705-018-4100-7
Veesler D, Cambillau C (2011) A common evolutionary origin for tailed-bacteriophage functional modules and bacterial machineries. Microbiol Mol Biol Rev. 75(3):423–433
Tang G, Peng L, Baldwin PR, Mann DS, Jiang W, Rees I, Ludtke SJ (2007) EMAN2: an extensible image processing suite for electron microscopy. J Struct Biol 157(1):38–46
Heymann JB, Belnap DM (2007) Bsoft: image processing and molecular modeling for electron microscopy. J Struct Biol 157(1):3–18
Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, Ferrin TE (2004) UCSF chimera—a visualization system for exploratory research and analysis. J Comput Chem 25(13):1605–1612
Aksyuk AA, Rossmann MG (2011) Bacteriophage assembly. Viruses. 3(3):172–203
Schwarzer D, Buettner FFR, Browing C et al (2012) A multivalent adsorption apparatus explains the broad host range of phage phi92: a comprehensive genomic and structural analysis. J Virol 86(19):10384–10398
Effantin G, Hamasaki R, Kawasaki T et al (2013) Cryo-electron microscopy three-dimensional structure of the jumbo phage ΦRSL1 infecting the phytopathogen Ralstonia solanacearum. Structure 21(2):298–305
Leiman PG, Arisaka F, van Raaij MJ, Kostyuchencho VA, Aksyuk AA, Kanamaru S, Rossmann MG (2010) Morphogenesis of the T4 tail and tail fibers. Virol J 7:355
Zheng W, Wang F, Taylor NMI, Guerrero-Ferreira RC, Leiman PG, Egelman EH (2017) Refined cryo-EM structure of the T4 tail tube: exploring the lowest dose limit. Structure 25(9):1436–1441
Sciara G, Bebeacua C, Bron P et al (2010) Structure of lactococcal phage p2 baseplate and its mechanism of activation. PNAS 107(15):6852–6857
Nováček J, Šiborová M, Benešík M, Pantůček R, Doškař J, Plevka P (2016) Structure and genome release of Twort-like Myoviridae phage with a double-layered baseplate. PNAS 113(33):9351–9356
Taylor NM, Prokhorov NS, Guerrero-Ferreira RC, Shneider MM et al (2016) Structure of the T4 baseplate and its function in triggering sheath contraction. Nature 533(7603):346–352
Zheng W, Wang F, Taylor NMI et al (2017) Refined cryo-EM structure of the T4 tail tube: exploring the lowest dose limit. Structure 25(9):1436–1441
Ge P, Scholl D, Leiman PG et al (2015) Atomic structures of a bactericidal contractile nanotube in its pre- and post-contraction states. Nat Struct Mol Biol 22:377–382
Bebeacua C, Lai L, Vegge CK, Brøndsted L, van Heel M, Veesler D, Cambillau C (2013) Visualizing a complete Siphoviridae member by single-particle electron microscopy: the structure of lactococcal phage TP901-1. J Virol 87(2):1061–1068
Sen A, Ghosh AN (2017) Visualizing a Vibrio cholerae O1 El Tor ty** bacteriophage belonging to the Myoviridae group and the packaging of its genomic ends inside the phage capsid. J Biomol Struct Dyn 17:1–14
Acknowledgements
The authors declare no conflicts of interest. No animal or human experiments were involved in this work. The authors thank Dr. Moumita Dutta for valuable input. AS and ANG designed the project. AS carried out the computational image analysis. SD carried out proteomics studies. AS and ANG wrote the paper.
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Sen, A., Das, S. & Ghosh, A.N. Computational image analysis of the baseplate-tail complex of O1 ElTor vibriophage M4. Arch Virol 165, 2641–2646 (2020). https://doi.org/10.1007/s00705-020-04765-6
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DOI: https://doi.org/10.1007/s00705-020-04765-6