This approach has not yet been tried in the lab.
We will explain the theoretical experiment performed when filling the
form as shown
in
the picture:
In this experiment we will use only one endonuclease (
BsaJI with
recognition sequence C'CNNG_G) to perform an AFLP-PCR-like
experiment. The maximum length of
fragments
has been set up to 3000 bp.
Endonuclease
BsaJI cuts
E. coli K12 genome 11483 times
(more info
here), so
11483 fragments will be yielded.
By using the experimental conditions introduced in the form, in the
first step, two kinds
of fragments will be computed:
CCCCGG----------C
C----------GGTTC
and
CTTGG----------C
C----------GGCCCC
In a second step, as sequence CCNNGG has been introduced in the form as
"Exclusion sequence", all fragments including within their
sequence the "Exclusion sequence" will be removed from final
results.
.
