Volume 8, Number 11, November 2002

Tuberculosis Genotyping Network, United States

Spoligologos: A Bioinformatic Approach to Displaying and Analyzing Mycobacterium tuberculosis Data

Jeffrey R. Driscoll,* Pablo J. Bifani,† Barun Mathema,‡ Michael A. McGarry,* Genét M. Zickas,* Barry N. Kreiswirth,‡ and Harry W. Taber*
*New York State Department of Health, Albany, New York, USA; †Institut Pasteur de Lille, Lille, France; and ‡Public Health Research Institute, New York, New York, USA

Figure 1. Logo analysis on spoligotypes associated with Mycobacterium bovis. The Wadsworth Center database contains 28 unique spoligotypes from strains of M. bovis. Panel A illustrates the raw hybridization data followed by the same patterns coded for logo analysis. To be compatible with WebLogo analysis, patterns were converted to a 43-character–long string consisting of the letters x and o. The letter x represents a positive hybridization, and o represents no hybridization detected for each of the 43 spacer sequences. Panel B is the graphic output from WebLogo. Numbers in each panel represent the spoligotype assay spacer sequences 1–43. Panel C shows the summary graphic of the spoligotypes by collapsing the data into a single row. Legend: x = hybridization observed to spacer, o= no hybridization observed to spacer, < = positive hybridization in every spoligotype pattern for that individual spacer sequence, 1= no hybridization, ==positive hybridization in >50% of the patterns, O = no hybridization in >50% of the patterns.

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This page last reviewed November 5, 2002

Emerging Infectious Diseases Journal
National Center for Infectious Diseases
Centers for Disease Control and Prevention