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The Genome of Bacillus subtilis Bacteriophage SPO1

Overview of attention for article published in Journal of Molecular Biology, March 2009
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  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (80th percentile)
  • High Attention Score compared to outputs of the same age and source (80th percentile)

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2 patents

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Title
The Genome of Bacillus subtilis Bacteriophage SPO1
Published in
Journal of Molecular Biology, March 2009
DOI 10.1016/j.jmb.2009.03.009
Pubmed ID
Authors

Charles R. Stewart, Sherwood R. Casjens, Steven G. Cresawn, Jennifer M. Houtz, Alexis L. Smith, Michael E. Ford, Craig L. Peebles, Graham F. Hatfull, Roger W. Hendrix, Wai Mun Huang, Marisa L. Pedulla

Abstract

We report the genome sequence of Bacillus subtilis phage SPO1. The unique genome sequence is 132,562 bp long, and DNA packaged in the virion (the chromosome) has a 13,185-bp terminal redundancy, giving a total of 145,747 bp. We predict 204 protein-coding genes and 5 tRNA genes, and we correlate these findings with the extensive body of investigations of SPO1, including studies of the functions of the 61 previously defined genes and studies of the virion structure. Sixty-nine percent of the encoded proteins show no similarity to any previously known protein. We identify 107 probable transcription promoters; most are members of the promoter classes identified in earlier studies, but we also see a new class that has the same sequence as the host sigma K promoters. We find three genes encoding potential new transcription factors, one of which is a distant homologue of the host sigma factor K. We also identify 75 probable transcription terminator structures. Promoters and terminators are generally located between genes and together with earlier data give what appears to be a rather complete picture of how phage transcription is regulated. There are complete genome sequences available for five additional phages of Gram-positive hosts that are similar to SPO1 in genome size and in composition and organization of genes. Comparative analysis of SPO1 in the context of these other phages yields insights about SPO1 and the other phages that would not be apparent from the analysis of any one phage alone. These include assigning identities as well as probable functions for several specific genes and inferring evolutionary events in the phages' histories. The comparative analysis also allows us to put SPO1 into a phylogenetic context. We see a pattern similar to what has been noted in phage T4 and its relatives, in which there is minimal successful horizontal exchange of genes among a "core" set of genes that includes most of the virion structural genes and some genes of DNA metabolism, but there is extensive horizontal transfer of genes over the remainder of the genome. There is a correlation between genes in rapid evolutionary flux through these genomes and genes that are small.

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 109 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 2 2%
Canada 1 <1%
Brazil 1 <1%
Spain 1 <1%
Mexico 1 <1%
Unknown 103 94%

Demographic breakdown

Readers by professional status Count As %
Researcher 23 21%
Student > Ph. D. Student 22 20%
Student > Master 10 9%
Professor > Associate Professor 7 6%
Student > Bachelor 5 5%
Other 18 17%
Unknown 24 22%
Readers by discipline Count As %
Agricultural and Biological Sciences 48 44%
Biochemistry, Genetics and Molecular Biology 22 20%
Immunology and Microbiology 7 6%
Environmental Science 2 2%
Economics, Econometrics and Finance 1 <1%
Other 2 2%
Unknown 27 25%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 7. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 14 May 2019.
All research outputs
#5,338,984
of 25,373,627 outputs
Outputs from Journal of Molecular Biology
#2,310
of 11,922 outputs
Outputs of similar age
#20,584
of 108,932 outputs
Outputs of similar age from Journal of Molecular Biology
#16
of 83 outputs
Altmetric has tracked 25,373,627 research outputs across all sources so far. Compared to these this one has done well and is in the 78th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 11,922 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.6. This one has done well, scoring higher than 80% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 108,932 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 80% of its contemporaries.
We're also able to compare this research output to 83 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 80% of its contemporaries.