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Using the primer design principle of simple sequence repeats (SSR) and the reference sequence of the duplicated CSBs, specific primers were designed to amplify the duplicated CSBs.
Primers used for bisulfite-treated DNA amplification were designed using the primer design program MSPprimer (http://www.mspprimer.org/cgi-mspprimer/design.cgi).
Primers for RT-PCR were designed using the primer design software Primer3 (Table S5), and then the sequence homology for related proteins was checked.
The plasmid information for pNW55 has been integrated into the online WMD2 platform, and all appropriate primer sequences, needed for customization of pNW55, can be retrieved using the primer design function of WMD2.
Primers were custom made (Integrated DNA Technologies Inc., Coralville, IA) for the GABAAα subunits using the primer design tool OLIGO (Molecular Biology Insights Inc., Cascade, CO) with sequence files deposited in the Entrez Nucleotides database (www.ncbi.nlm.nih.gov).nih.gov
Primers were designed by using the primer design software Primer Express 2.0 (PE Applied Biosystems, USA).
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Primers were designed using the primer designing tool Primer-BLAST from NCBI (Table 2).
Thereafter, the single-stranded cDNA was used as templates for double-stranded synthesis by PCR amplification using the primer designed according to the adapter sequence.
Sequencing of the positive BAC clones using the primer designed from 475 bp region revealed a clone with entire 475 bp sequences.
IMP genes of interest (Table 1) were amplified from MG1665 genomic DNA using the primers designed by J545 in Table S5 with PrimeStar DNA polymerase.
Using the primers designed, PCR reactions were performed on the DNA samples.
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