IslandPathversion 1.0

This is an old version of IslandPath - the most up to date implementation is integrated into IslandViewer

An aid to the identification of genomics islands, including pathogenicity islands, of potentially horizontally transferred genes.

Introduction

Genomic islands (GIs), including pathogenicity islands, are frequently associated with particular adaptations of microbes that are of medical, agricultural or environmental importance. Many classic virulence factors and antimicrobial resistance genes are disproportionately associated with GIs. Moreover, systematic analyses of predicted GIs (see Hsiao et al 2005) revealed that these genomic regions contain higher proportions of novel genes (genes with few or no detectable homologs) - suggesting that microbes may have access to a larger "arsenal" of novel genes for adaptation than previously thought. Therefore, by identifying and analyzing these regions in pathogenic bacteria, we may be able to identify novel genes of medical interest.

What's New

Dec 04, 2008: "Updated Genome Analyses" Version updated to include additional organisms.

Mar 12, 2008: "Updated Genome Analyses" Version updated to include additional organisms.

Dec 11, 2007: "Updated Genome Analyses" Version updated to include additional organisms. Please note that the issue with pathogens being classified as nonpathogens has been fixed. Please contact us if you notice any other errors. Thank you.

June 17, 2007: "Updated Genome Analyses" Version updated to include additional organisms. Please note that due to the NCBI format changes, some pathogens may accidentally be classified as nonpathogens in this update. The cause is being investigated. In the meantime, please look under both sections if you don't find the pathogen that you are looking for. Thanks.

Oct 13, 2006: "Updated Genome Analyses" Version updated to include additional organisms.

June 6, 2006: "Updated Genome Analyses" Version updated to include additional organisms.

May 1, 2006: Due to NCBI changing its web form format, PID links were broken. It is now fixed.

April 1, 2006: "Updated Genome Analyses" Version updated to include additional organisms.

Previous News: News Archive

 

Select a Version

Original Genome Analyses
This version maintains the original organism datafiles as they first became available on IslandPath. For each organism in IslandPath, the original analysis performed can be found here. These genome sequences may have been updated since (see Updated Genome Analyses below), however these original files contain the analysis as performed on the date the organism was first entered into IslandPath. As new organisms are entered into islandPath, their initial analysis will appear here. This ensures that the users will always be able to view the same data no matter when they access IslandPath. New organisms will be added regularly.
Updated Genome Analyses
The Updated version contains the analyses performed on the latest genomic sequence and annotation information provided by NCBI. This version allows users to see the most recent analyses available. Each time IslandPath is updated with new organisms, all the organisms are re-analyzed based on the most recent NCBI files. The numbering of genes and the locations of putative islands may change from version to version depending on NCBI updates.
 

Using IslandPath

See the help file for more information, plus analyses that illustrate the utility of IslandPath.
 
 

Last Updated: June 17, 2007

Funding for this work was initally provided by the Peter Wall Institute for Advanced Studies. Recent funding sources include Michael Smith Fundation for Health Research, Canadian Institues of Health Research, and Genome Canada, Genome BC, and Genome Prairie funded FPMI Project. This service is hosted by the Brinkman Laboratory of the Department of Molecular Biology and Biochemistry at Simon Fraser University.