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Adapter sequences containing optimal terminal nucleotide ends for increased ligation efficiency were designed and ligation of adapters to template DNA was optimized.
Methylation of linearized pUC19 DNA was optimized by varying the level of the M.SssI methyltransferase, the AdoMet concentration, and the reaction time for DNA methylation.
(A ) Volumetric ratio of AMpure beads to DNA was optimized to selectively retain fragments below 200 bp in the unbound fraction using a 10-bp ladder as a test case.
Finally, the peak height (-d[F1]/dT) ratio between sample and regular lymphoid DNA was optimized by adjusting the starting point of MCA and the number of amplification cycles [ 20- 22].
Retrieval of immune-precipitated DNA was optimized using overnight proteinase K treatment and 6-hour 65°C de-crosslinking with phenol-chloroform (cat 9732) extraction in phaselock tubes (5-prime, cat 713-2536) to Lo-Bind tubes (Eppendorf, cat 525-0130) as described [ 30].
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A rapid, economical and efficient method of DNA extraction was optimized to extract sufficient amount of DNA to perform >200 polymerase chain reactions (PCR).
DNA extraction was optimized from blood and serum and detection achieved by a 16S rRNA targeted PCR with verification of the product by DNA sequencing.
The DNA extraction protocol was optimized.
DNA polymerization efficiency was optimized by selecting amplicon lengths ranging from 69 to 174 bp (Additional File 1) for human genes and from 68 to 138 bp (Additional File 2) for horse genes.
The NucleoSpin® DNA Clean-Up XS kit was optimized for the best possible DNA recovery and then evaluated for its ability to remove eight commonly encountered PCR inhibitors including: bile salt, collagen, hematin, humic acid, indigo, melanin, tannic acid and urea.
The concentrations of primers, template DNA, Master Mix, and annealing temperature was optimized on eight diverse accessions for 156 SSR markers distributed on the 12 chromosomes by modified Taguchi method (Cobb and CIarkson 1994).
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CEO of Professional Science Editing for Scientists @ prosciediting.com