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The mutants consisted of various lengths of inserts with no bias in their base uses at each degenerate site.
Once each library was constructed, the lengths of inserts were identified by amplifying randomly 100 clones with universal T7 primers.
To convert CB units to kilobytes, we estimated the lengths of inserts in 100 BAC clones in kb by pulsed field gel electrophoresis (PFGE) and divided the total length by the number of restriction fragments in the fingerprints of the clones.
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Several positive clones were recovered from each transformation reaction and analysed for the lengths of insert by gel electrophoresis.
In our design procedure, the T-S fuzzy approximation method is only employed to simplify the specification of kinetic parameters of gene circuit of molecular noise filter, i.e., the specification procedure of lengths of inserted binding sites of TF produced by regulatory genes in gene circuit design procedure.
Interestingly, the insertion mutants display variable length of inserts, ranging from adding 4 to 12 amino acids corresponding to the 8 partially degenerate triples in the designed oligonucleotides.
A total of 15,296,102 paired-end reads of 36 bp length were generated, with the average length of inserts of paired-end reads at 163 bp.
White colonies were grown in 100 μL LB (+ampicillin, 75 mg L−1) in 96-well plates (IBL, Austria) at 37 °C, 180 rpm, for 6 h. 1 μL culture was used for colony PCR using M13 primers to check for presence and length of inserts.
When we took into account the insertions containing partially assembled sequences, the total length of inserted sequences in Kasalath increased to 7.39 Mb, which, however, was still much less than that of the deleted sequences (13.49 Mb).
For the interior variants, Figure 4 showed the length of inserted peptides for all simulated interior isoforms from rice and Arabidopsis chromosomes.
A paired-end library was constructed, and the average length of insert was about 500 bp.
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