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Toulouse Plant Microbe Phenotyping Platform

Microbe Phenotyping


The Omnilog robot is an automated incubator, containing a camera. It is capable of high throughput colorimetric screening of 50 x 96-well microtitre plates in parallel, equivalent to 4800 simultaneous experiments. Through measuring all the plates every 15 minutes, it can provide kinetic data on metabolic activity of the microorganisms over several days. Combined with the microplates « Biolog » (phenotyping microarrays) it is a powerful tool for the identification of microorganisms and for the characterisation of their metabolic activity in various environmental conditions : different carbon and nitrogen sources, stress resistance (pH, osmolarity, temperature), antibiotic resistance.


The operation of the platform consists of kinetic measurements of 96-well microtitre plates for all types of microorganisms with the Omnilog robot. Examples of possible analyses:

  • Microorganism identification
  • Metabolic characterisation of microorganisms
  • Antibiotic sensitivity of microorganisms
  • Identification of gene function (knock-out mutants vs wild-type ; comparison of different strains)
  • Optimisation of bio-procedures...

Details on the functioning of the platform

  • A unique incubation temperature is fixed per week, with the maximum duration of an experiment being 6 days.
  • Temperature range of between 20 - 45°C.
  • Day 1 of the analyses: Tuesday afternoon : arrive with inoculated plates before 16h00.
  • Destruction of the microtitre plates: responsibility of the user at the end of the experiment.
  • Data: to be recovered from the PC on a USB key

Biolog plates:

Expertise on the use of the Biolog microtitre plates is not part of the competence of the platform. The platform only provides the means of measurement. Note that the protocol for using this technology can vary with the microorganism. It is recommended to solicit the experts of Biolog (represented by Awel in France).

Clients of TPMP-Omnilog have run experiments with:

  • Ralstonia solanacearum, beta-proteo bacterium, plant pathogen
  • Shinorhizobium melilotii, alpha-proteo bacterium, plant symbiont
  • Cupriavidus taiwanensis, beta-proteo bacterium, plant symbiont
  • Streptomyces spp., Actinobacteria
  • Sclerotinia sclerotiorum, ascomycete, plant pathogen
  • Pseudomonas aeruginosa, gamma-proteo bacterium, human opportunist and pathogen
  • Oomycetes