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Bartel's Targetscan publishes dual lists of targets based on either conserved or non-conserved sites.
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We evaluated the evolutionary conservation of each pathway map, based on the conserved orthologous genes derived as above.
Primers were designed based on highly conserved iridoviral sequences.
Specific primers and hybridization probes were designed based on highly conserved VP1 region of EV71 or CA16.
We used degenerated primers designed based on highly conserved regions of known mollusk GSTs to amplify the corresponding L. elliptica mRNA.
Primers for β-defensin 1 and hepcidin (Table 2) were designed based on highly conserved regions of β-defensin 1 and hepcidin gene from various teleost species available in NCBI using Gene runner software v3.5 (http://www.generunner.net/).
Such diversity confounds interpretations of prevalence data based on relatively conserved 18S rRNA sequences.
PCR was carried out on all DNA extracts using primers based on highly conserved regions of the 16S ribosomal gene.
When no syntenic gene was identified, a predicted location was generated based on syntenically conserved flanker genes.
A full list of known interactors and their interacting domains based on remotely conserved domains can be found in Supplemental Table S6.
This was surprising in light of the fact that these sets were based on portions conserved across only selected mammalian genomes, which were expected to differ significantly from gene sets based on the chicken genome.
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