Mre11, together with Rad50 and Xrs2/NBS, plays pivotal roles in homologous recombination, repair of DNA double strand breaks (DSBs), activation of damage-induced checkpoint, and telomere maintenance. Using DNA microarray assays to analyze yeast mutants (mre11delta, rad50delta, and spo11Y135F) defective for meiotic DSB formation, we demonstrate that the absence of Mre11 in yeast causes specific effects on regulation of a class of meiotic genes for spore development. The transcriptional deficiency was not observed in other DSB mutants such as rad50delta and spo11Y135F, suggesting the transcriptional defect in mre11delta is due to neither lack of meiotic DSB formation, nor disintegrity of Mre11-Rad50-Xrs2 complex.These defects were confirmed by northern and lacZ reporter gene assays. Keywords: mutant vs. wildtype strains
Overall design
Gene expression data from wild type, mre11delta, rad50delta, and spo11Y135F cells in premeiosis (meiosis 0 hr) and prophase (meiosis 4 hr). Affymetrix GeneChip YG-S98 was used. All strains used were SK1 background diploid cells.
Comparison of GSM153628 vs. GSM153627 header descriptions
ID_REF
Affymetrix probe set identifier
SIGNAL
Normalized Signal Intensity against GSM153627
CHANGE_CALL
the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO
Signal log2 Ratio
CHANGE P-VALUE
p-value that indicates the significance level of the change call
Data table
ID_REF
SIGNAL
CHANGE_CALL
RATIO
CHANGE P-VALUE
AFFX-MurIL2_at
3.4
NC
-0.3
0.948067
AFFX-MurIL10_at
1.4
NC
0
0.976667
AFFX-MurIL4_at
1.7
NC
0.4
0.5
AFFX-MurFAS_at
4.2
NC
-2
0.631577
AFFX-BioB-5_at
229.2
NC
0.1
0.5
AFFX-BioB-M_at
439.7
NC
0.1
0.5
AFFX-BioB-3_at
323.6
NC
0.3
0.061083
AFFX-BioC-5_at
712.8
I
0.8
0.000002
AFFX-BioC-3_at
496.3
I
0.6
0.000028
AFFX-BioDn-5_at
765.1
I
0.8
0.000001
AFFX-BioDn-3_at
3784.6
NC
0.4
0.035841
AFFX-CreX-5_at
5693.8
I
0.7
0.000001
AFFX-CreX-3_at
7174.7
I
0.4
0.000122
AFFX-BioB-5_st
5.7
NC
-1
0.5
AFFX-BioB-M_st
36.1
NC
2.1
0.02189
AFFX-BioB-3_st
9.8
NC
0.7
0.1535
AFFX-BioC-5_st
4.6
NC
-0.1
0.5
AFFX-BioC-3_st
12
NC
1
0.061083
AFFX-BioDn-5_st
38.3
NC
-0.4
0.574632
AFFX-BioDn-3_st
75.9
NC
0.5
0.225811
Total number of rows: 9335
Table truncated, full table size 256 Kbytes.
Comparison of GSM153630 vs. GSM153627 header descriptions
ID_REF
Affymetrix probe set identifier
SIGNAL
Normalized Signal Intensity against GSM153627
CHANGE_CALL
the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO
Signal log2 Ratio
CHANGE P-VALUE
p-value that indicates the significance level of the change call
Data table
ID_REF
SIGNAL
CHANGE_CALL
RATIO
CHANGE P-VALUE
AFFX-MurIL2_at
4.2
NC
-0.7
0.790016
AFFX-MurIL10_at
1.1
NC
-0.5
0.995787
AFFX-MurIL4_at
1
NC
0.4
0.5
AFFX-MurFAS_at
5.7
NC
-1.3
0.766029
AFFX-BioB-5_at
142.7
NC
-0.6
0.982583
AFFX-BioB-M_at
203.7
NC
-0.7
0.965205
AFFX-BioB-3_at
197.5
NC
-0.5
0.976667
AFFX-BioC-5_at
370.8
NC
-0.2
0.5
AFFX-BioC-3_at
300.8
NC
-0.1
0.5
AFFX-BioDn-5_at
433.6
NC
0
0.5
AFFX-BioDn-3_at
2128.3
D
-0.5
0.999999
AFFX-CreX-5_at
2574.5
D
-0.5
0.999858
AFFX-CreX-3_at
3767.2
D
-0.5
1
AFFX-BioB-5_st
5.3
NC
-1.2
0.5
AFFX-BioB-M_st
2.2
NC
-0.3
0.727363
AFFX-BioB-3_st
2.7
NC
-0.2
0.731811
AFFX-BioC-5_st
8.7
NC
0.1
0.5
AFFX-BioC-3_st
17.9
NC
1.2
0.889365
AFFX-BioDn-5_st
6.8
D
-2.7
0.999695
AFFX-BioDn-3_st
17.3
D
-1.6
0.999982
Total number of rows: 9335
Table truncated, full table size 256 Kbytes.
Comparison of GSM153632 vs. GSM153627 header descriptions
ID_REF
Affymetrix probe set identifier
SIGNAL
Normalized Signal Intensity against GSM153627
CHANGE_CALL
the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO
Signal log2 Ratio
CHANGE P-VALUE
p-value that indicates the significance level of the change call
Data table
ID_REF
SIGNAL
CHANGE_CALL
RATIO
CHANGE P-VALUE
AFFX-MurIL2_at
2.4
NC
-0.8
0.99507
AFFX-MurIL10_at
0.9
NC
-0.6
0.99507
AFFX-MurIL4_at
2.8
NC
0.7
0.246512
AFFX-MurFAS_at
14
NC
-0.4
0.5
AFFX-BioB-5_at
156.2
NC
-0.3
0.5
AFFX-BioB-M_at
275.2
NC
-0.5
0.970067
AFFX-BioB-3_at
250.9
NC
-0.1
0.5
AFFX-BioC-5_at
390.6
NC
-0.1
0.5
AFFX-BioC-3_at
312.7
NC
0
0.5
AFFX-BioDn-5_at
442.5
NC
0.1
0.069631
AFFX-BioDn-3_at
2776.1
NC
-0.2
0.5
AFFX-CreX-5_at
3388.6
NC
-0.2
0.5
AFFX-CreX-3_at
4789.8
NC
-0.2
0.5
AFFX-BioB-5_st
2.6
NC
-1.6
0.5
AFFX-BioB-M_st
3.7
NC
0
0.238112
AFFX-BioB-3_st
5.3
NC
-0.4
0.574632
AFFX-BioC-5_st
4.9
NC
-0.2
0.542816
AFFX-BioC-3_st
2.9
NC
-0.4
0.5
AFFX-BioDn-5_st
18.6
NC
-2.2
0.713805
AFFX-BioDn-3_st
74.4
NC
0.1
0.5
Total number of rows: 9335
Table truncated, full table size 256 Kbytes.
Comparison of GSM153634 vs. GSM153627 header descriptions
ID_REF
Affymetrix probe set identifier
SIGNAL
Normalized Signal Intensity against GSM153627
CHANGE_CALL
the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO
Signal log2 Ratio
CHANGE P-VALUE
p-value that indicates the significance level of the change call