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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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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
CreatorsEmailPitt UsernameORCID
Pope, WH
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
ContributionContributors NameEmailPitt UsernameORCID
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: 22 Jun 2021 12:56


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