Despite the presence of sufficient variation for the traits between the two parents, most of the gene based markers did not show polymorphism indicating the possibility of novel QTLs.
EST-SSRs are useful for genetic analysis, but their relatively low polymorphism and the high possibility of no gene-rich regions in the genome are limitations to their use.
7 Although the functional effect of the intronic polymorphism is unknown, the possibility of its quantitative impact on RAGE expression should not be ruled out.
Although caution must be exercised given the linked nature of mitochondrial single nucleotide polymorphisms (SNPs), the relatively small sample size and the possibility of founder effects in small populations, we are confident that our study provides strong support for a putative role of selection in shaping mtDNA variability in Atlantic salmon.
For miR-376c, miR-376a, miR-34a, miR-503, miR-21, and miR-122, the RNA modifications were detected using both methods, and the possibility of a single nucleotide polymorphism at any of the RNA editing sites was excluded by comparison with the public database OncoDb HCC.
Detection of male-specific fragments on Southern blots indicated the presence of homologous sequences on the Y chromosomes, and the possibility of restriction fragment length polymorphism was ruled out by using two restriction enzymes.
We evaluated all substitution and indel variants detected by 454 and excluded repeat polymorphisms because of the possibility of false positive errors from PCR amplification [20].
In this analysis, we excluded repeat polymorphisms and indels because nearly all indels were homopolymer-associated false positive errors and the possibility of the repeats being PCR artifacts.
IGFBP3 is the principal carrier of both IGF1 and IGF2 and the possibility of a regulatory feedback of IGF1 and IGFBP3 through polymorphisms in IGF2 cannot be excluded.
32 If subtelomere FISH analyses reveal abnormalities, FISH should also be performed on both parents to establish the parental origin of the anomaly and exclude the possibility of polymorphism.
