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A Roadmap for Genome-Based Phage Taxonomy [PDF]
Viruses, 2021 Bacteriophage (phage) taxonomy has been in flux since its inception over four decades ago. Genome sequencing has put pressure on the classification system and recent years have seen significant changes to phage taxonomy. Here, we reflect on the state of phage taxonomy and provide a roadmap for the future, including the abolition of the order ...
Dann Turner +2 more
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Genome Sequence of Salmonella Phage χ [PDF]
Genome Announcements, 2015 ABSTRACT Salmonella bacteriophage χ is a member of the Siphoviridae family that gains entry into its host cells by adsorbing to their flagella. We report the complete 59,578-bp sequence of the genome of phage χ, which together with its relatives, exemplifies a largely unexplored type of tailed ...
Roger W. Hendrix +6 more
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Cell, 2002 The Age of Genomics dawned only gradually for bacteriophages. It was 1977 when the genome of phage phi X174 was published and 1983 when the "large" genome of phage lambda hit the streets. More recently, the pace has quickened, so that we now have over 100 complete phage genomes and can expect thousands in a very few years.
Harald Brüssow, Roger W. Hendrix
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Evolutionary Stability of a Refactored Phage Genome
ACS Synthetic Biology, 2012 Engineered genetic systems are commonly unstable; if propagated, they evolve to reverse or modify engineered elements because the elements impair fitness. A goal of synthetic biology is thus to anticipate and avoid detrimental engineering, but little is yet known about which types of elements cause problems in different contexts.
Rachael Springman +4 more
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The Caulobacter crescentus phage phiCbK: genomics of a canonical phage [PDF]
BMC Genomics, 2012 AbstractBackgroundThe bacteriumCaulobacter crescentusis a popular model for the study of cell cycle regulation and senescence. The large prolate siphophage phiCbK has been an important tool inC. crescentusbiology, and has been studied in its own right as a model for viral morphogenesis.
Ashlyn M Thorn +13 more
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Virology, 2001 Lactococcus lactis phage BK5-T and Streptococcus thermophilus phage Sfi21, two cos-site temperate Siphoviridae with 40-kb genomes, share an identical genome organization, sequence similarity at the amino acid level over about half of their genomes, and nucleotide sequence identity of 60% over the DNA packaging and head morphogenesis modules ...
Frank Desiere +5 more
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Marine phage genomics: the tip of the iceberg [PDF]
FEMS Microbiology Letters, 2016 Marine viruses are the most abundant biological entity in the oceans, the majority of which infect bacteria and are known as bacteriophages. Yet, the bulk of bacteriophages form part of the vast uncultured dark matter of the microbial biosphere. In spite of the paucity of cultured marine bacteriophages, it is known that marine bacteriophages have major
Perez-Sepulveda, Blanca +6 more
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Similarities and dissimilarities of phage genomes. [PDF]
Proceedings of the National Academy of Sciences, 1996 Genomic similarities and contrasts are investigated in a collection of 23 bacteriophages, including phages with temperate, lytic, and parasitic life histories, with varied sequence organizations and with different hosts and with different morphologies. Comparisons use relative abundances of di-, tri-, and tetranucleotides from entire genomes.
Samuel Karlin +2 more
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The Phage Proteomic Tree: a Genome-Based Taxonomy for Phage [PDF]
Journal of Bacteriology, 2002 ABSTRACTThere are ∼1031phage in the biosphere, making them the most abundant biological entities on the planet. Despite their great numbers and ubiquitous presence, very little is known about phage biodiversity, biogeography, or phylogeny. Information is limited, in part, because the current ICTV taxonomical system is based on culturing phage and ...
Robert Edwards, Forest Rohwer
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Characterizing Phage Genomes for Therapeutic Applications [PDF]
Viruses, 2018 Multi-drug resistance is increasing at alarming rates. The efficacy of phage therapy, treating bacterial infections with bacteriophages alone or in combination with traditional antibiotics, has been demonstrated in emergency cases in the United States and in other countries, however remains to be approved for wide-spread use in the US.
Theron Hamilton +13 more
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