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The B. terrae BS001 genome further revealed the presence of four copies of predicted T6SSs, numbered T6SS-I through T6SS-IV (12 25 genes).
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The Arabidopsis genome contains two copies of genes predicted to encode plastid-localized 6PGDH enzymes and one gene predicted to encode a cytosolic 6PGDH.
The reason this was not obvious before is because Hamilton's method of calculating the net effect of an altruistic gene on copies of itself predicted whether it would evolve in the total population, but did not reveal its local selective disadvantage and the corresponding need for between group selection to evolve.
Amongst the other outer membrane proteins, B. pilosicoli 95/1000 contained three copies of bspA, predicted to encode a BspA-like surface protein.
The completed genome of G. metallireducens contained several copies of genes predicted to be involved in fatty acid oxidation.
While human possess a single copy of LysRS and ProRS, L. major has two copies of these predicted to be in the cytoplasm.
In our case this is the squared correlation between the true number of haplotypes (defined across all SNPs typed in the 92 controls) and the number of copies of haplotypes predicted as being carried, based on the tagSNPs.
As a positive control, we generated a luciferase reporter with four copies of the predicted Arx binding site, TAATTA, and as a negative control we used the empty TK-luciferase-containing vector.
The number of predicted copies did not appear to correlate with transcript accumulation, i.e. number of tissues in which they were detected or relative levels.
Thus, the P. ramorum RXLR super-family displays a narrower range of predicted copy number, compared to P. sojae, but yet far more P. ramorum effector genes have closely related copies within the genome.
T-test with significant P-value <0.05 was used to find out statistical significance of predicted copy number alterations.
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