Antonie van Leeuwenhoek

, Volume 97, Issue 3, pp 231–239

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

  • Sanjay Antony-Babu
  • James E. M. Stach
  • Michael Goodfellow
Original Paper

DOI: 10.1007/s10482-009-9404-x

Cite this article as:
Antony-Babu, S., Stach, J.E.M. & Goodfellow, M. Antonie van Leeuwenhoek (2010) 97: 231. doi:10.1007/s10482-009-9404-x

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.

Keywords

Colour-groupings Dereplication Numerical analysis Molecular fingerprinting Streptomycetes 

Supplementary material

10482_2009_9404_MOESM1_ESM.pdf (48 kb)
(PDF 48 kb)

Copyright information

© Springer Science+Business Media B.V. 2009

Authors and Affiliations

  • Sanjay Antony-Babu
    • 1
  • James E. M. Stach
    • 1
  • Michael Goodfellow
    • 1
  1. 1.Microbial Resources Laboratory, School of BiologyNewcastle UniversityNewcastle-upon-TyneUK

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