Genome-wide polysomal analysis of a yeast strain with mutated ribosomal protein S9

BMC Genomics

Table 4 Summary of the three experimental repeats of the RDM analysis

		First Repeat^a		Second Repeat		Third Repeat
Gene (cleavage site)	Resulting fragment	Wild-type	rps9-Δ188	Wild-type	rps9-Δ188	Wild-type	rps9-Δ188
YHB1 (cleavage at the middle of the ORF)^b	5' half	13.7	14.3	13.5	15.2	14.2	14.9
	3' half	13.7	14.6	13.4	15.2	14.3	15.1
	Difference^e	0	0.3	-0.1	0	0.1	0.2
YHB1 (cleavage at the first and last thirds)^c	5' third	14	13.6	11.9	13.7	13.4	14.8
	3' third	13.5	13.2	11.4	14.1	12.6	14.5
	Difference^e	-0.5	-0.4	-0.5	0.4	-0.8	-0.3
YGR026W (cleavage at the middle of the ORF)^d	5' half	12.4	14.7	13.8	13.1	12.9	15.4
	3' half	12.5	14.9	13.9	13.5	12.6	15.4
	Difference^e	0.1	0.2	0.1	0.4	-0.3	0

Numbers indicate the weighted-average fraction for each fragment. They were obtained by summing the products of the relative signal in a fraction times the fraction number for all fractions with a signal above background.
a – This experimental repeat is presented in Figures 4 and 5.
b – Cleavage scheme as depicted in Figure 4A.
c – Cleavage scheme as depicted in Figure 5. Note that in the second and third repeats, the cleavage was done simultaneously with both ODNs added to the same sample. This enabled performing the entire procedure with a single sample (including separation on a single sucrose gradient and using northern analysis), therefore lowering the experimental error.
d – Cleavage scheme as depicted in Figure 4B.
e – Difference between the weighted-average fraction for the 3' fragment and the 5' fragment. This value represents the difference in sedimentation between the two fragments.

ISSN: 1471-2164