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Fungal Molecular Diagnostics


Sequence Analysis

Slide 14

February 2011

The DNA sequence from the patient-derived isolate is then compared to fungal sequence libraries containing well-characterized sequences. Libraries searched include the MicroSeq library from Applied Biosystems and a laboratory-specific custom library that we have developed over the last decade. Finally, if neither of these databases provides a good matching sequence, the NCBI GenBank database can be searched using the BLAST tool. Caution should be used when matches are achieved against the GenBank database since it is not curated and therefore may contain inaccurate sequences or organism identifications. Before using a GenBank sequence, we make certain the sequence is an exact match to the unknown isolate, that it is of a good length and quality score, that it was deposited by a reputable, experienced group or individual, that it has been published in a peer-reviewed journal, and that the phenotypic description in the journal matches the unknown isolate before considering reporting it as a match. The DNA sequence can be obtained in as little as 8 hours after an organism has grown in culture providing a very rapid turnaround time as compared with many phenotypic identification methods.

Sequence Analysis

 


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