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  • yzzhang
    replied
    Here is a review listing the methods to detect genomic islands http://www.nature.com/nrmicro/journa...micro2350.html

    Leave a comment:


  • DrX
    replied
    You'll just need to pick out differences manually. Use a visual genome aligner like Mauve to compare your genome against a reference. You can even get as simple as a straight up dotplot. Large genetic insertions should be blindingly obvious.

    Leave a comment:


  • mmmm
    replied
    what is the software can tell about genomic islands (no. size, etc) in relation to the reference bacterial genome please?

    Leave a comment:


  • mmmm
    replied
    thanks- what is the fastest approach to determine unique genes (specially genomic islands) within the assembled draft genomes

    Leave a comment:


  • maubp
    replied
    There are lots of approaches, often based on comparison to several close relatives to find novel genes not in the relatives. If these form clusters they are candidates for horizontally acquired islands - although if in a lone contig you might also suspect contamination.

    Leave a comment:


  • mmmm
    started a topic genomic islands

    genomic islands

    hi all- is there a softwrae that is used to determine (genomic islands) within the draft assembled bacterial genomes?- thanks all

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