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Sequence characteristics of T4-like bacteriophage IME08 benome termini revealed by high throughput sequencing.

ABSTRACT: BACKGROUND: T4 phage is a model species that has contributed broadly to our understanding of molecular biology. T4 DNA replication and packaging share various mechanisms with human double-stranded DNA viruses such as herpes virus. The literature indicates that T4-like phage genomes have permuted terminal sequences, and are generated by a DNA terminase in a sequence-independent manner; METHODS: genomic DNA of T4-like bacteriophage IME08 was subjected to high throughput sequencing, and the read sequences with extraordinarily high occurrences were analyzed; RESULTS: we demonstrate that both the 5' and 3' termini of the IME08 genome starts with base G or A. The presence of a consensus sequence TTGGA|G around the breakpoint of the high frequency read sequences suggests that the terminase cuts the branched pre-genome in a sequence-preferred manner. Our analysis also shows that terminal cleavage is asymmetric, with one end cut at a consensus sequence, and the other end generated randomly. The sequence-preferred cleavage may produce sticky-ends, but with each end being packaged with different efficiencies; CONCLUSIONS: this study illustrates how high throughput sequencing can be used to probe replication and packaging mechanisms in bacteriophages and/or viruses.

SUBMITTER: Jiang X

PROVIDER: S-EPMC3105952 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature

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Sequence characteristics of T4-like bacteriophage IME08 benome termini revealed by high throughput sequencing.

Jiang Xiaofang X Jiang Huanhuan H Li Cun C Wang Sheng S Mi Zhiqiang Z An Xiaoping X Chen Jiankui J Tong Yigang Y

Virology journal 20110427

<h4>Background</h4>T4 phage is a model species that has contributed broadly to our understanding of molecular biology. T4 DNA replication and packaging share various mechanisms with human double-stranded DNA viruses such as herpes virus. The literature indicates that T4-like phage genomes have permuted terminal sequences, and are generated by a DNA terminase in a sequence-independent manner;<h4>Methods</h4>genomic DNA of T4-like bacteriophage IME08 was subjected to high throughput sequencing, an ...[more]

PMID: 21524290

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Sequence characteristics of T4-like bacteriophage IME08 benome termini revealed by high throughput sequencing.

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Sequence characteristics of T4-like bacteriophage IME08 benome termini revealed by high throughput sequencing.

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