TITLE

Bacterial repetitive extragenic palindromic sequences are DNA targets for Insertion Sequence elements

AUTHOR(S)
Tobes, Raquel; Pareja, Eduardo
PUB. DATE
January 2006
SOURCE
BMC Genomics;2006, Vol. 7, p62
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Background: Mobile elements are involved in genomic rearrangements and virulence acquisition, and hence, are important elements in bacterial genome evolution. The insertion of some specific Insertion Sequences had been associated with repetitive extragenic palindromic (REP) elements. Considering that there are a sufficient number of available genomes with described REPs, and exploiting the advantage of the traceability of transposition events in genomes, we decided to exhaustively analyze the relationship between REP sequences and mobile elements. Results: This global multigenome study highlights the importance of repetitive extragenic palindromic elements as target sequences for transposases. The study is based on the analysis of the DNA regions surrounding the 981 instances of Insertion Sequence elements with respect to the positioning of REP sequences in the 19 available annotated microbial genomes corresponding to species of bacteria with reported REP sequences. This analysis has allowed the detection of the specific insertion into REP sequences for ISPsy8 in Pseudomonas syringae DC3000, ISPa11 in P. aeruginosa PA01, ISPpu9 and ISPpu10 in P. putida KT2440, and ISRm22 and ISRm19 in Sinorhizobium meliloti 1021 genome. Preference for insertion in extragenic spaces with REP sequences has also been detected for ISPsy7 in P. syringae DC3000, ISRm5 in S. meliloti and ISNm1106 in Neisseria meningitidis MC58 and Z2491 genomes. Probably, the association with REP elements that we have detected analyzing genomes is only the tip of the iceberg, and this association could be even more frequent in natural isolates. Conclusion: Our findings characterize REP elements as hot spots for transposition and reinforce the relationship between REP sequences and genomic plasticity mediated by mobile elements. In addition, this study defines a subset of REP-recognizer transposases with high target selectivity that can be useful in the development of new tools for genome manipulation.
ACCESSION #
28858618

 

Related Articles

  • Whole Genome Sequence of Treponema pallidum ssp. pallidum, Strain Mexico A, Suggests Recombination between Yaws and Syphilis Strains. Pětrošová, Helena; Zobaníková, Marie; Čejková, Darina; Mikalová, Lenka; Pospíšilová, Petra; Strouhal, Michal; Lei Chen; Xiang Qin; Muzny, Donna M.; Weinstock, George M.; Šmajs, David // PLoS Neglected Tropical Diseases;Sep2012, Vol. 6 Issue 9, p1 

    Background: Treponema pallidum ssp. pallidum (TPA), the causative agent of syphilis, and Treponema pallidum ssp. pertenue (TPE), the causative agent of yaws, are closely related spirochetes causing diseases with distinct clinical manifestations. The TPA Mexico A strain was isolated in 1953 from...

  • The bacterial pathogen Listeria monocytogenes: an emerging model in prokaryotic transcriptomics.  // Journal of Biology;2008, Vol. 8, p202 

    A major challenge in bacterial pathogenesis is understanding the molecular basis of the switch from saprophytism to virulence. Following a recent whole-genome transcriptomic analysis using tiling arrays, an article published in BMC Genomics reports the first use of RNA-seq in Listeria...

  • Virulence related sequences; insights provided by comparative genomics of Streptococcus uberis of differing virulence. Hossain, Maqsud; Egan, Sharon A.; Coffey, Tracey; Ward, Philip N.; Wilson, Ray; Leigh, James A.; Emes, Richard D. // BMC Genomics;2015, Vol. 16 Issue 1, p1 

    Background: Streptococcus uberis, a Gram-positive, catalase-negative member of the family Streptococcaceae is an important environmental pathogen responsible for a significant proportion of subclinical and clinical bovine intramammary infections. Currently, the genome of only a single reference...

  • Land of opportunity. Coghlan, Andy // New Scientist;11/04/2000, Vol. 168 Issue 2263, p31 

    Reports on the sequencing of the humane genome and its impact on the treatment for diseases. Importance of finding the link between genes and disease; Discussion of single nucleotide polymorphisms (SNPs), which are the variants in genes that make each person a distinct individual; Idea that...

  • A Genome-Wide Approach to Discovery of Small RNAs Involved in Regulation of Virulence in Vibrio cholerae. Bradley, Evan S.; Bodi, Kip; Ismail, Ayman M.; Camilli, Andrew // PLoS Pathogens;Jul2011, Vol. 7 Issue 7, Special section p1 

    Small RNAs (sRNAs) are becoming increasingly recognized as important regulators in bacteria. To investigate the contribution of sRNA mediated regulation to virulence in Vibrio cholerae, we performed high throughput sequencing of cDNA generated from sRNA transcripts isolated from a strain...

  • Potato blight has the genome of death.  // New Scientist;9/12/2009, Vol. 203 Issue 2725, p16 

    The article focuses on a study on the genome of Phytophthora infestans (P. infestans), an oomycete or water mould that causes potato blight, conducted by researchers at the Sainsbury Laboratory in Norwich, England. The genome was sequenced by the research team and discovered it stores genes that...

  • Molecular characterization of infectious bursal disease virus (IBDV): Diversity of very virulent IBDV in Tanzania. Kasanga, C. J.; Yamaguchi, T.; Wambura, P. N.; Maeda-Machang'u, A. D.; Ohya, K.; Fukushi, H. // Archives of Virology;Apr2007, Vol. 152 Issue 4, p783 

    Nucleotide sequences of the VP2 hypervariable region (VP2-HVR) of 14 infectious bursal disease viruses (IBDVs) isolated in Tanzania from 2001 to 2004 were determined. Phylogenetic analysis showed that the isolates diverged into two genotypes and belonged to the very virulent (VV) type. In the...

  • SeqWord Gene Island Sniffer: a Program to Study the Lateral Genetic Exchange among Bacteria. Bezuidt, O.; Lima-Mendez, G.; Reva, O. N. // World Academy of Science, Engineering & Technology;Oct2009, Issue 34, p410 

    SeqWord Gene Island Sniffer, a new program for the identification of mobile genetic elements in sequences of bacterial chromosomes is presented. This program is based on the analysis of oligonucleotide usage variations in DNA sequences. 3,518 mobile genetic elements were identified in 637...

  • Dynamic equilibrium of Marek's disease genomes during in vitro serial passage. Spatz, Stephen; Volkening, Jeremy; Gimeno, Isabel; Heidari, Mohammad; Witter, Richard // Virus Genes;Dec2012, Vol. 45 Issue 3, p526 

    Attenuation of Gallid herpesvirus-2 (GaHV-2), the causative agent of Marek's disease, can occur through serial passage of a virulent field isolate in avian embryo fibroblasts. In order to gain a better understanding of the genes involved in attenuation and associate observed changes in phenotype...

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics