http://www.ccdb.ca/docs/CCDB_PrimerSets-Plants.pdf
I use rbclA-F/R for plants. For plants, they also tend to use 2 different primer pairs, but I forgot the 2nd pair, and multiplex them. For bacteria/fungi it seems "acceptable" by barcode people to use just 16s or ITS, but for plants and animals I see a lot of double pair multiplexing. Kind of fell off my barcoding obsession and been doing other things so I can't remember the primer pairs anymore off the top of my head.
On Mon, Oct 14, 2013 at 5:12 PM, Cathal Garvey <cathalgarvey@cathalgarvey.me> wrote:
Does barcoding have any relevance to phylogeny? I thought it was like a
"bio-hash", with the output guaranteed to be unique but not necessarily
have any other useful purpose.. :)
Certainly 16S rRNA and other medium-high conserved genes are useful for
inferring relationships between species, but for intra-species
relationships there's probably a different set of more medium-variable
genes that vary more within centuries.
> ------------------------------
On Mon, 14 Oct 2013 13:06:09 -0700
Sebastian Cocioba <scocioba@gmail.com> wrote:
> DNA barcode for plants may give some insight to the evolutionary
> origin of said grain. I'm not sure how varied the sites are in the
> same species across time.
>
> Sebastian S. Cocioba
> CEO & Founder
> New York Botanics, LLC
> Plant Biotech R&D
> From: Mega [Andreas Stuermer] <masterstorm123@gmail.com>
> Sent: 10/14/2013 3:42 PM
> To: diybio@googlegroups.com
> Subject: [DIYbio] Barcoding of wheat
>
> Hi everyone,
>
> Near my university hundreds of kilograms of old grains were found in
> holes below the ground. They were dated to the 1st century after
> Christ, and Roman origin (Roman settlement).
> It seems to have been some kind of a reserve, or storage facility.
> Strangely, the grains are black.
>
> Well, as a project we have to do some analysis. Regarding protein
> content, nitrogen content, etc etc.
>
> I was wondering, wheter we could use PCR to identify the strain of
> wheat used / or relationship to modern strains...
>
> A google research, however, showed no viable results.
>
> Would be nice if someone had an idea ;)
>
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