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We synthesized the sequences containing the target genes, each of which was flanked by two restriction BamH I enzyme sites.
Two restriction sites were created for those mutations in each segment, Fsp I and Dra I, respectively.
Additionally, two restriction sites (MluI and SspI) were integrated between the first terminator and the lov gene.
The orientation of the subcloned fragment was checked by digestion with two restriction enzymes, Sal I and Xho I, sites that are present in the ORF of OsIDS1.
For library construction, two restriction enzymes, Pst I and Not I, were introduced into the 5′ and 3′ ends of the final VHH PCR fragments, respectively.
Otherwise, the multi-allele markers were based on different point mutation positions within the locus that had more than two restriction sites.
This in silico approach revealed the necessity to use a combination of two restriction enzymes for T-RFLP analysis of the Chrysophyceae.
Three sets of four species-specific primers were designed with one or two restriction enzyme sites contained in the inner primers of each set.
The two restriction enzyme recognition sites were included to facilitate subsequent cloning procedures.
Total genomic DNA (200 ng) was digested with two restriction enzymes Pst I and Mse I and ligated to adaptors.
Ideally, old-protocol VIDISCA-454 (two restriction enzymes, random hexamers and no rRNA-blocking oligo's) should have been compared with optimized VIDISCA-454.
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