scholarly journals Mycobacteriophages BPs, Angel and Halo: comparative genomics reveals a novel class of ultra-small mobile genetic elements

Microbiology ◽  
2009 ◽  
Vol 155 (9) ◽  
pp. 2962-2977 ◽  
Author(s):  
Timothy Sampson ◽  
Gregory W. Broussard ◽  
Laura J. Marinelli ◽  
Deborah Jacobs-Sera ◽  
Mondira Ray ◽  
...  
Keyword(s):  
Comparative Genomics ◽  
Genome Analysis ◽  
Mycobacterium Smegmatis ◽  
Active Form ◽  
Mobile Genetic Elements ◽  
Mobile Elements ◽  
Comparative Genome Analysis ◽  
Coding Region ◽  
Comparative Genome ◽  
Genetic Elements

Mycobacteriophages BPs, Angel and Halo are closely related viruses isolated from Mycobacterium smegmatis, and possess the smallest known mycobacteriophage genomes, 41 901 bp, 42 289 bp and 41 441 bp, respectively. Comparative genome analysis reveals a novel class of ultra-small mobile genetic elements; BPs and Halo each contain an insertion of the proposed mobile elements MPME1 and MPME2, respectively, at different locations, while Angel contains neither. The close similarity of the genomes provides a comparison of the pre- and post-integration sequences, revealing an unusual 6 bp insertion at one end of the element and no target duplication. Nine additional copies of these mobile elements are identified in a variety of different contexts in other mycobacteriophage genomes. In addition, BPs, Angel and Halo have an unusual lysogeny module in which the repressor and integrase genes are closely linked. The attP site is located within the repressor-coding region, such that prophage formation results in expression of a C-terminally truncated, but active, form of the repressor.

scholarly journals Comparative Genome Analysis of Campylobacter fetus Subspecies Revealed Horizontally Acquired Genetic Elements Important for Virulence and Niche Specificity

PLoS ONE ◽  
2014 ◽  
Vol 9 (1) ◽  
pp. e85491 ◽  
Author(s):  
Sabine Kienesberger ◽  
Hanna Sprenger ◽  
Stella Wolfgruber ◽  
Bettina Halwachs ◽  
Gerhard G. Thallinger ◽  
...  
Keyword(s):  
Genome Analysis ◽  
Comparative Genome Analysis ◽  
Comparative Genome ◽  
Genetic Elements ◽  
Campylobacter Fetus

Synteny Conservation and Chromosome Rearrangements During Mammalian Evolution

Genetics ◽  
1997 ◽  
Vol 147 (1) ◽  
pp. 289-296 ◽  
Author(s):  
Jason Ehrlich ◽  
David Sankoff ◽  
Joseph H Nadeau
Keyword(s):  
Genome Analysis ◽  
Systematic Errors ◽  
Chromosome Rearrangements ◽  
Mammalian Evolution ◽  
Comparative Genome Analysis ◽  
Reciprocal Translocations ◽  
Comparative Genome ◽  
Strong Selection ◽  
Synteny Conservation

Abstract An important problem in comparative genome analysis has been defining reliable measures of synteny conservation. The published analytical measures of synteny conservation have limitations. Nonindependence of comparisons, conserved and disrupted syntenies that are as yet unidentified, and redundant rearrangements lead to systematic errors that tend to overestimate the degree of conservation. We recently derived methods to estimate the total number of conserved syntenies within the genome, counting both those that have already been described and those that remain to be discovered. With this method, we show that ~65% of the conserved syntenies have already been identified for humans and mice, that rates of synteny disruption vary ~25-fold among mammalian lineages, and that despite strong selection against reciprocal translocations, inter-chromosome rearrangements occurred approximately fourfold more often than inversions and other intra-chromosome rearrangements, at least for lineages leading to humans and mice.

scholarly journals Complete Genome Sequence of the Giant Virus OBP and Comparative Genome Analysis of the Diverse  KZ-Related Phages

2011 ◽  
Vol 86 (3) ◽  
pp. 1844-1852 ◽  
Author(s):  
A. Cornelissen ◽  
S. C. Hardies ◽  
O. V. Shaburova ◽  
V. N. Krylov ◽  
W. Mattheus ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Genome Analysis ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Giant Virus ◽  
Comparative Genome Analysis ◽  
Comparative Genome

Corrigendum: Comparative genome analysis of three Group A Streptococcus dysgalactiae subsp. equisimilis strains isolated in Japan

2021 ◽  
Vol 70 (8) ◽  
Author(s):  
Haruka Ishihara ◽  
Kohei Ogura ◽  
Van An Nguyen ◽  
Tohru Miyoshi-Akiyama ◽  
Shigefumi Okamoto ◽  
...  
Keyword(s):  
Genome Analysis ◽  
Group A Streptococcus ◽  
Comparative Genome Analysis ◽  
Streptococcus Dysgalactiae ◽  
Comparative Genome ◽  
Group A
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