Taxonomy of Thermus sp.

Ronan.Okennedy Ronan.Okennedy at UCG.IE
Wed Oct 5 09:26:31 EST 1994


>Hi Folks,
>
>A question for the taxonomists out there.
>
>I have approx 100 Thermus sp. isolates. I want to find if any could
>potentially be new Thermus species ie are different from Thermus aquaticus
>YT1, Thermus brockianus and Thermus thermophilus. I don't want to find
>how related they are to one another just whether they are different
>from valid species. There are a lot of Thermus isolates around but
>taxonomy is kind of in its infancy in this species.
>
>Now I know I can do DNA/DNA hybridisation but that takes a lot of
>time if you are not set up and are starting from scratch. I can do
>16SrRNA RFLP patterns either on PCR'd 16S or by southerns with a 16s
>probe. I know from a students work that Fusobacterium species have
>unique rRNA RFLP patterns specific for the species but does this
>apply to other organisms. Is there any other method that is quick
>and reasonable valid. I don't want to have to have to sequence 100
>16SrRNA variable regions! I don't want to propose anything as a new
>species on whatever method I settle on, Ijust want pointers towards novel
>species. Classical microbiology on 100 isolates will take too much
>work at this stage.
>
>Many thanks
>
>Duncan
>-----------------------------------------------------------------------------
>Duncan Clark                        | Internet:    duncan at genesys.demon.co.uk
>G4ELJ                               | Compuserve:  100015.1406 at compuserve.com
>-----------------------------------------------------------------------------



What about M13 fingerprinting?..based on 2 clusters of 15bp sequence within
protein gene III gene. Single starnded M13 DNA can be used as an RFLP probe
for repeditive sequences in bacteria and eucaryotes. Has the advantage that
you don't need to do any extensive probe preparation.
refs
Vassart et al(feb 1987) Science 235 pp 234-235
Vassart (Apr1987) Trends in Genetics vol3 p89

There are refs for applications in a procaryotes and eucaryotes which I
have somewhere. If you are interested contact me at above mail address.

Ronan O'Kennedy
Ronan.Okennedy at bodkin.ucg.ie
Fermentation Technology
Department of Microbiology
University College
Galway
Ireland





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