Broad-Host-Range
            <i>Yersinia</i>
            Phage PY100: Genome Sequence, Proteome Analysis of Virions, and DNA Packaging Strategy

Schwudke, Dominik; Ergin, Asgar; Michael, Kathrin; Volkmar, Sven; Appel, Bernd; Knabner, Dorothea; Konietzny, Antje; Strauch, Eckhard

doi:10.1128/jb.01402-07

Cited by 42 publications

(42 citation statements)

References 48 publications

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“…Further analyses located the pac site near or within the putative terminase subunit (data not shown). A similar location was reported previously for other phages (9,12,58,69).…”

Section: Resultssupporting

confidence: 64%

Genome Organization and Characterization of the Virulent Lactococcal Phage 1358 and Its Similarities to Listeria Phages

Dupuis

Moineau

2010

Appl Environ Microbiol

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The genomic organization was similar to those of other siphophages. All genes were on the same coding strand and in the same orientation. This lactococcal phage was unique, however, in its 51.4% GC content, much higher than those of other phages infecting this low-GC Gram-positive host. A bias for GC-rich codons was also observed. Comparative analyses showed that several phage 1358 structural proteins shared similarity with two Listeria monocytogenes phages, P35 and P40. The possible origin and evolution of lactococcal phage 1358 is discussed.

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“…Further analyses located the pac site near or within the putative terminase subunit (data not shown). A similar location was reported previously for other phages (9,12,58,69).…”

Section: Resultssupporting

confidence: 64%

Genome Organization and Characterization of the Virulent Lactococcal Phage 1358 and Its Similarities to Listeria Phages

Dupuis

Moineau

2010

Appl Environ Microbiol

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“…Like Rosebush, the Pine5 genome assembled into a circular map, and no end sequences were identified, strongly suggesting that the phage utilizes a pac-type headful packaging mechanism (56). Additional TerL proteins significantly related to the TerL protein from Pine5 and Rosebush encoded by other phages were demonstrated to have circularly permuted genomes, included Bcep781, Aaphi23, and PY100 (59,61,68).…”

Section: Vol 77 2011 Genomic and Functional Analyses Of R Equi Phamentioning

confidence: 99%

Genomic and Functional Analyses of Rhodococcus equi Phages ReqiPepy6, ReqiPoco6, ReqiPine5, and ReqiDocB7

Summer

Liu

Gill

et al. 2011

Appl Environ Microbiol

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The isolation and results of genomic and functional analyses of Rhodococcus equi phages ReqiPepy6, ReqiDocB7, ReqiPine5, and ReqiPoco6 (hereafter referred to as Pepy6, DocB7, Pine5, and Poco6, respectively) are reported. Two phages, Pepy6 and Poco6, more than 75% identical, exhibited genome organization and protein sequence likeness to Lactococcus lactis phage 1706 and clostridial prophage elements. An unusually high fraction, 27%, of Pepy6 and Poco6 proteins were predicted to possess at least one transmembrane domain, a value much higher than the average of 8.5% transmembrane domain-containing proteins determined from a data set of 36,324 phage protein entries. Genome organization and protein sequence comparisons place phage Pine5 as the first nonmycobacteriophage member of the large Rosebush cluster. DocB7, which had the broadest host range among the four isolates, was not closely related to any phage or prophage in the database, and only 23 of 105 predicted encoded proteins could be assigned a functional annotation. Because of the relationship of Rhodococcus to Mycobacterium, it was anticipated that these phages should exhibit some of the features characteristic of mycobacteriophages. Traits that were identified as shared by the Rhodococcus phages and mycobacteriophages include the prevalent long-tailed morphology and the presence of genes encoding LysBlike mycolate-hydrolyzing lysis proteins. Application of DocB7 lysates to soils amended with a host strain of R. equi reduced recoverable bacterial CFU, suggesting that phage may be useful in limiting R. equi load in the environment while foals are susceptible to infection.Although the "tailed phage," or members of the virus order Caudovirales, constitute the majority of DNA diversity on the planet, the genomes of only a few hundred are known. Moreover, the genomic data that are available for bacteriophages are extremely unevenly distributed in terms of host species, with two-thirds derived from phages of only eight host genera or closely related bacterial species, including those belonging to the Staphylococcus, Mycobacterium, Pseudomonas, Lactococcus, and Burkholderia genera and the Enterobacteriaceae family (28). Nevertheless, some important themes have emerged from analyzing multiple phages that infect closely related host genera. One theme emerging is that despite rampant lateral gene transfer, there are recognizable "phage types" spanning geography and host taxa. Casjens (11a) was able to group 73 tailed-enterophage genomes into 13 phage types, the members of which were more closely related to each other by a number of criteria than they were to any member of another type. It should be noted that the classic enterophages do not include representatives of all phage types. When groups of phages from other host clades are sequenced, new phages and new phage types are identified. For example, among the sequenced phages of Burkholderia, there are members of the established , Mu, and P2 temperate phage types, as well as entirely new virulent phage types, such a...

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“…In fact, several of the types and even subtypes defined here, the lambdoid type and T1-like and HK97-like subtypes, have members that have different tail morphologies. T1 has a long non-contractile tail while PY100 has a contractile tail [57], and λ and HK97 long non-contractile tails, while SfV and P22 have a long contractile and a short tail, respectively. P22, for example, has head and tail genes that are not recognizably similar to those of λ, but the two phages can form viable hybrids and have gene organization, transcription pattern and early genes that are extremely similar; indeed, two cognate regulatory proteins, the λ gene Q protein and P22 gene 23 protein (96% identical), are known to have the same DNA binding/transcription antitermination specificity [2,53].…”

Section: Completely Sequenced Tailed-phages That Infect the Enterobacmentioning

confidence: 99%

Diversity among the tailed-bacteriophages that infect the Enterobacteriaceae

Casjens

2008

Research in Microbiology

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Complete genome sequences have been determined for seventy-three tailed-phages that infect members of the bacterial Enterobacteriaceae family. Biological criteria such as genome size, gene organization and gene orientation were used to place these phages into categories. There are thirteen such categories, some of which are themselves extremely diverse. The relationships between and within these categories are discussed with an emphasis on the head assembly genes. Although some of them are clearly homologues, suggesting a very ancient origin, there is little evidence for exchange of individual head genes between these phage categories. More recent horizontal exchange of phage tail fiber and early proteins between the categories occurs, but is probably not extremely rapid.

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Broad-Host-Range Yersinia Phage PY100: Genome Sequence, Proteome Analysis of Virions, and DNA Packaging Strategy

Cited by 42 publications

References 48 publications

Genome Organization and Characterization of the Virulent Lactococcal Phage 1358 and Its Similarities to Listeria Phages

Genome Organization and Characterization of the Virulent Lactococcal Phage 1358 and Its Similarities to Listeria Phages

Genomic and Functional Analyses of Rhodococcus equi Phages ReqiPepy6, ReqiPoco6, ReqiPine5, and ReqiDocB7

Diversity among the tailed-bacteriophages that infect the Enterobacteriaceae

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