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we might have to stop talking about bacteria...

Discussion in 'Aquatic Microbiology' started by Rhizomorph, Feb 24, 2015.

  1. Rhizomorph

    Rhizomorph Junior Poster

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    snarkingturtle likes this.
  2. Tom Barr

    Tom Barr Founder
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  3. Rhizomorph

    Rhizomorph Junior Poster

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    Hey Tom, I suspect that's due to the primers used in the older study. The 16S primers used by the older study 27F/1492R do amplify some Archaea -- but there's plenty they miss. In 2001, this group of Archaea wasn't well understood either :p (it's still not for the most part!). 2001 predates the modern changes in microbial ecology that are associated with (largely) improvements in DNA sequencing technologies.
     
    #3 Rhizomorph, Feb 24, 2015
    Last edited by a moderator: Feb 24, 2015
  4. Rhizomorph

    Rhizomorph Junior Poster

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    That said, DGGE isn't used by many people any more either :p
     
  5. Tom Barr

    Tom Barr Founder
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    Timothy Hoevanec is well cited within the hobby FYI(Link to the paper I provided's author). .....so it brings up some new information and some that needs addressed as well.
     
  6. Rhizomorph

    Rhizomorph Junior Poster

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    I think it would be a good idea for someone to test this with some more modern, broader-specificity primers. I've work with mixed archaeal and bacterial communities and have found the TX9/1391R primers to provide better coverage of both groups -- but like any primer pair, they are going to have biases. One other way it could be approached is using a metagenomic approach -- but this is a much more expensive (and complicated) undertaking. -- Rhizomorph.
     
  7. Julia Adkins

    Julia Adkins aquariumfertilizer.com
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    To add a light note to the discussion. You should not talk bad about bacteria. It is the only culture some people have.
     
    VaughnH and Kyalgae like this.
  8. VaughnH

    VaughnH Lifetime Charter Member
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    I must admit this left me speechless!
     
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