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Computer-assisted numerical analysis of colour-group data for dereplication of streptomycetes for bioprospecting and ecological purposes

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Abstract

Large numbers of alkaliphilic streptomycetes isolated from a beach and dune sand system were dereplicated manually based on aerial spore mass, colony reverse and diffusible pigment colours formed on oatmeal agar, and on their capacity to produce melanin pigments on peptone-yeast extract-iron agar. The resultant data were converted to their respective red, blue and green shade intensities. The Euclidean distances between each of the colours were calculated by considering red, green and blue shade intensity values as X, Y and Z coordinates in three dimensional space. The clusters of isolates delineated in the dendrogram generated using the distances were found to match those obtained by manual colour-grouping of the isolates. A reasonable linear correlation was found between the colour-group and corresponding rep-PCR data. The implications of the computer-assisted colour-grouping method for bioprospecting and ecological studies are discussed.

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Acknowledgments

Sanjay Antony-Babu is grateful to the University of Newcastle for an International Research Scholarship and to the School of Biology for a Research Studentship. Authors would also like to thank Sapna Chitlapilly Dass for helping with the statistical analysis.

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Authors and Affiliations

  1. Microbial Resources Laboratory, School of Biology, Newcastle University, Newcastle-upon-Tyne, NE1 7RU, UK

    Sanjay Antony-Babu, James E. M. Stach & Michael Goodfellow

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  1. Sanjay Antony-Babu
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  2. James E. M. Stach
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  3. Michael Goodfellow
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Correspondence to Sanjay Antony-Babu.

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Antony-Babu, S., Stach, J.E.M. & Goodfellow, M. Computer-assisted numerical analysis of colour-group data for dereplication of streptomycetes for bioprospecting and ecological purposes. Antonie van Leeuwenhoek 97, 231–239 (2010). https://doi.org/10.1007/s10482-009-9404-x

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