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A TF-specific GOOFE was defined for each L. plantarum LacI-family TF on basis of context conservation and then the upstream regions preceding the conserved operons/genes were selected (see Methods for the precise procedure).
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To do this, we split the expression context conservation scores of all 1 2 orthologous groups into two data sets: one containing the highest (most conserved) expression context conservation scores, the other containing the lower (less conserved) scores.
In doing so, it blatantly contradicts the lesson Aldo Leopold taught us so well: the basis of sound conservation is not merely pragmatic it; is also ethical.
and designed on the basis of their conservation level for viral strain discrimination.
We conclude on the basis of sequence conservation that both paralogs are likely to be functional.
On the basis of sequence conservation across species, five pairs corresponding degenerate primers were designed.
BGC could thus further reduce the power to detect functional regions on the basis of sequence conservation.
The expected level of consistency between the sequence identity and the expression context conservation in a completely consistent set of 1 2 orthologs was calculated by separating the expression context conservation scores into two data sets.
Other studies have examined a larger neighborhood of genes surrounding a gene pair to evaluate genomic context conservation.
This may reflect the molecular basis of conservation and elaboration of Hox gene regulation during evolution of these species [ 12].
1. High content of Zn in modern cells – predicted on the basis of the "chemical conservation" principle.
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