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Cluster J Mycobacteriophages: Intron Splicing in Capsid and Tail Genes

Pope, WH and Jacobs-Sera, D and Best, AA and Broussard, GW and Connerly, PL and Dedrick, RM and Kremer, TA and Offner, S and Ogiefo, AH and Pizzorno, MC and Rockenbach, K and Russell, DA and Stowe, EL and Stukey, J and Thibault, SA and Conway, JF and Hendrix, RW and Hatfull, GF (2013) Cluster J Mycobacteriophages: Intron Splicing in Capsid and Tail Genes. PLoS ONE, 8 (7).

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Abstract

Bacteriophages isolated on Mycobacterium smegmatis mc2155 represent many distinct genomes sharing little or no DNA sequence similarity. The genomes are architecturally mosaic and are replete with genes of unknown function. A new group of genomes sharing substantial nucleotide sequences constitute Cluster J. The six mycobacteriophages forming Cluster J are morphologically members of the Siphoviridae, but have unusually long genomes ranging from 106.3 to 117 kbp. Reconstruction of the capsid by cryo-electron microscopy of mycobacteriophage BAKA reveals an icosahedral structure with a triangulation number of 13. All six phages are temperate and homoimmune, and prophage establishment involves integration into a tRNA-Leu gene not previously identified as a mycobacterial attB site for phage integration. The Cluster J genomes provide two examples of intron splicing within the virion structural genes, one in a major capsid subunit gene, and one in a tail gene. These genomes also contain numerous free-standing HNH homing endonuclease, and comparative analysis reveals how these could contribute to genome mosaicism. The unusual Cluster J genomes provide new insights into phage genome architecture, gene function, capsid structure, gene mobility, intron splicing, and evolution. © 2013 Pope et al.


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Item Type: Article
Status: Published
Creators/Authors:
CreatorsEmailPitt UsernameORCID
Pope, WHwelkin@pitt.eduWELKIN0000-0002-2012-2924
Jacobs-Sera, Ddjs@pitt.eduDJS0000-0001-7838-3257
Best, AA
Broussard, GW
Connerly, PL
Dedrick, RMdedrick@pitt.eduDEDRICK
Kremer, TA
Offner, S
Ogiefo, AH
Pizzorno, MC
Rockenbach, K
Russell, DAdar78@pitt.eduDAR780000-0001-6894-2748
Stowe, EL
Stukey, J
Thibault, SA
Conway, JFJames.Conway@pitt.eduJXC100
Hendrix, RWrhx@pitt.eduRHX
Hatfull, GFgfh@pitt.eduGFH
Contributors:
ContributionContributors NameEmailPitt UsernameORCID
EditorPavelka, MartinUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Date: 9 July 2013
Date Type: Publication
Journal or Publication Title: PLoS ONE
Volume: 8
Number: 7
DOI or Unique Handle: 10.1371/journal.pone.0069273
Schools and Programs: Dietrich School of Arts and Sciences > Biological Sciences
Refereed: Yes
Other ID: NLM PMC3706429
PubMed Central ID: PMC3706429
PubMed ID: 23874930
Date Deposited: 12 Aug 2013 19:40
Last Modified: 02 Feb 2019 15:57
URI: http://d-scholarship.pitt.edu/id/eprint/19501

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