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By means of coding-gene SNP genotyping, Lamaze et al. (2012) showed that the dynamic of domestic introgression into wild populations was mediated by either positive or negative selection depending on loci.
The percentages of variation between species resulting from the AMOVA varied depending on loci categories and were 30.61, 42.53, 32.45 and 24.74 for OUT, UP, IN and DOWN loci, respectively (Table 3).
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The nature of re-fixation differed depending on locus of lesion.
Cycling was performed under the following conditions: 94°C for 15 min, 50 cycles of 30 s at 94°C, 30 s at 50 60°C, and 30 s at 72°C and a final step of 10 min at 72°C; annealing temperatures depended on loci.
That is, a given epistatic case from Figure 1 can give rise to different partitioning of the total genetic variance into main effects and interaction effects, and this depends on locus allele frequencies [e.g. 39].
Depending on the locus, methylated loci may or may not be correlated with gene expression, regardless of membership within a particular methylation pattern.
In case of missing allelic data, i.e. if the allelic content of some individuals is missing for one or several loci, one should define different weight systems depending on the loci.
Four mcySTs (mcyST10, mcyST11, mcyST24, and mcyST46) showed discordant placements between the two groups (A and B) depending on the loci used.
Moreover, depending on the loci of mtDNA cleavage, the pattern of dysregulation of mitochondrial proteins in early response to mtDNA cleavage differs.
The bisulfite sequencing data further suggested that cytosine methylation alteration in the mPing-body regions is also likely playing a role in the element's activity or immobility, depending on the loci.
Collectively, the bisulfite genomic sequencing data suggest that methylation status of both the 5'-flanks and the body-regions of mPing may be important for its activity or inactivity, depending on the loci.
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