In article <36ud2n$isf at mserv1.dl.ac.uk>, Ronan.Okennedy at UCG.IE
(Ronan.Okennedy) wrote:
> >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
You could also try RAPD which has been used with success as a typing method.
Wig.
