NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM10338 Query DataSets for GSM10338
Status Public on Oct 29, 2003
Title Reciprocity-8h high UV-B-2
Sample type RNA
 
Channel 1
Source name control
Organism Zea mays
Extracted molecule total RNA
 
Channel 2
Source name UV-B exposure
Organism Zea mays
Extracted molecule total RNA
 
 
Description Microarray hybridization was used to assess UV-B responses in both directly exposed and shielded tissues of a maize line deficient in anthocyanin accumulation. Among 347 transcripts found to be regulated after 8 h of high UV-B irradiation, 285 were increased significantly in at least one organ but only 80 were down-regulated by UV-B. Although some genes were regulated by UV-B in more than one sample, most UV-B regulated genes were organ-specific. A larger number of transcript changes occurred in directly exposed than in shielded organs, and more transcripts levels were changed in adult than in seedling tissues. Because shielded tissues including roots, immature ears, and leaves covered with a plastic that absorbs UV-B exhibited altered transcriptome profiles after plant exposure to UV-B, some signal(s) must be transmitted from irradiated to shielded tissues. The time course of transcript abundance changes monitored by RNA blot hybridization and real time RT-PCR indicated that the response kinetics to UV-B are very rapid as some transcript levels are altered within 1 h exposure, in both exposed and shielded tissues. As the same total UV-B irradiation dose applied at three intensities elicited different transcript profiles, transcriptome changes do not show reciprocity. Confirming and extending prior microarray hybridization results, supplemental UV-B increased expression of stress response and ribosomal protein genes, while photosynthesis-associated genes were down regulated in adult leaves.
 
Submission date Sep 18, 2003
Last update date May 28, 2005
Contact name Paula Casati
E-mail(s) casati@cefobi-conicet.gov.ar
Phone 54-341-4371955
Organization name Universidad Nacional de Rosario
Department Biological Sciences
Lab Casati
Street address Suipacha 531
City Rosario
State/province Santa Fe
ZIP/Postal code 2000
Country Argentina
 
Platform ID GPL499
Series (1)
GSE671 Rapid molecular responses of maize to UV-B: gene expression profiling in irradiated and shielded tissues

Data table header descriptions
ID_REF
VALUE log 2 ratio UV-B/control
ratio (M-N)/(J-K) UV-B/control
CH1I uncorrected mean pixel intensity for channel 1 (Cy3)
CH1B median background pixel intensity for channel 1 (Cy3)
CH1AB mean background pixel intensity for channel 1 (Cy3)
CH2I uncorrected mean pixel intensity for channel 2 (Cy5)
CH2B median background pixel intensity for channel 2 (Cy5)
CH2AB mean background pixel intensity for channel 2 (Cy5)
SPIX number of pixels in a spot
BGPIX uniform background in the two channels
EDGE
RAT2
MRAT median of (Ch2PI-CH2B)/(Ch1PI-CH1B)
REGR slope estimate by simple linear regression
CORR correlation between channel1 and channel 2 pixels within the spot
LFRAT slope estimate by least-squares fit
CH1GTB1 fraction of pixels in the spot greater than background (CH1B)
CH2GTB1 fraction of pixels in the spot greater than background (CH2B)
CH1GTB2 fraction of pixels in the spot greater than 1.5 times the background (CH1B)
CH2GTB2 fraction of pixels in the spot greater than 1.5 times the background (CH2B)
CH1EDGEA mean magnitude of the horizontal and vertical Sobel edge vectors contained within each spot (CH1)
CH2EDGEA mean magnitude of the horizontal and vertical Sobel edge vectors contained within each spot (CH2)
FLAG user defined spot flag
CH1KSD value of the Komogorov-Smirnov statistic that assesses the likelihood that the spot pixel intensity distribution is drawn from the background distribution
CH1KSP actual probability derived from CH1KSD
CH2KSD value of the Komogorov-Smirnov statistic that assesses the likelihood that the spot pixel intensity distribution is drawn from the background distribution
CH2KSP actual probability derived from CH2KSD

Data table
ID_REF VALUE ratio (M-N)/(J-K) CH1I CH1B CH1AB CH2I CH2B CH2AB SPIX BGPIX EDGE RAT2 MRAT REGR CORR LFRAT CH1GTB1 CH2GTB1 CH1GTB2 CH2GTB2 CH1EDGEA CH2EDGEA FLAG CH1KSD CH1KSP CH2KSD CH2KSP
1 1.428400194 2.048261897 3180 217 440 6404 335 438 177 1285 0 2.048 1.886 1.011 0.5066 3.258 0.9548 0.9605 0.8757 0.904 0.3195 0.3167 0 0.7819 0.00E+00 0.8084 0.00E+00
2 1.408717089 2.020506634 2706 219 478 5368 343 459 177 1084 0 2.021 1.843 0.9978 0.6457 1.914 0.8927 0.9153 0.7627 0.8249 0.2548 0.2681 0 0.663 0.00E+00 0.7386 0.00E+00
3 1.218579778 1.771019108 3371 231 383 5909 348 466 174 1137 0 1.771 1.772 1.115 0.6584 2.143 0.954 0.9368 0.8793 0.8563 0.3284 0.305 0 0.7731 0.00E+00 0.7844 0.00E+00
4 0.015791387 0.769392348 6897 232 509 5475 347 607 177 1049 0 0.7694 0.8385 0.6289 0.7837 0.7563 0.9492 0.904 0.8249 0.7966 0.4338 0.3965 0 0.6693 0.00E+00 0.6673 0.00E+00
5 0.107348489 0.819802611 6492 210 501 5475 325 631 177 1158 0 0.8198 0.8703 0.6168 0.6752 0.8747 0.8927 0.8644 0.791 0.7345 0.3969 0.3626 0 0.6928 0.00E+00 0.6107 0.00E+00
6 0.220681917 0.886800763 7030 219 777 6386 346 948 177 1092 0 0.8868 0.8649 0.6232 0.655 0.9269 0.9322 0.9153 0.8814 0.8531 0.4445 0.4184 0 0.684 0.00E+00 0.6272 0.00E+00
7 -0.067678224 0.726141079 1432 227 921 1238 363 860 177 1038 0 0.7261 0.6941 0.1545 0.1522 1.105 0.8475 0.8588 0.8079 0.7966 0.2862 0.2494 0 0.5079 5.14E-35 0.5355 7.01E-39
8 -0.010710361 0.755387931 1134 206 732 1034 333 620 177 1038 0 0.7554 0.709 0.2812 0.399 0.4472 0.904 0.9605 0.8531 0.8644 0.213 0.2056 0 0.6288 0.00E+00 0.6379 0.00E+00
9 0.047915853 0.786716558 1259 190 473 1145 304 452 177 1029 0 0.7867 0.7054 0.3915 0.5761 0.5261 0.9322 0.9435 0.8531 0.8927 0.2389 0.2239 0 0.7291 0.00E+00 0.7505 0.00E+00
10 2.66896305 4.839852399 2895 185 320 13415 299 376 177 1033 0 4.84 4.84 3.973 0.8462 5.479 0.7966 0.8362 0.6384 0.7345 0.2983 0.3948 0 0.5485 9.47E-41 0.6614 0.00E+00
11 2.689039515 4.907674328 2758 191 371 12901 303 400 177 993 0 4.908 4.82 3.589 0.7982 5.536 0.7571 0.8418 0.6102 0.7175 0.2831 0.3728 0 0.4993 1.20E-33 0.6014 0.00E+00
12 2.612740027 4.654867257 2793 194 312 12403 305 374 177 1051 0 4.655 4.242 3.364 0.7795 5.424 0.8362 0.8644 0.6497 0.7062 0.2882 0.3626 0 0.5176 2.04E-36 0.5845 0.00E+00
13 0.688575332 1.226523888 1406 192 241 1797 308 354 177 1067 0 1.227 1.22 0.8822 0.7444 1.255 0.9435 0.9548 0.8136 0.791 0.3082 0.2999 0 0.6909 0.00E+00 0.6765 0.00E+00
14 0.724288717 1.257264957 1360 190 242 1774 303 354 177 1022 0 1.257 1.259 0.9068 0.7419 1.309 0.9266 0.9153 0.7458 0.7797 0.328 0.2917 0 0.6259 0.00E+00 0.6458 0.00E+00
15 0.750516701 1.280330882 1283 195 313 1692 299 474 177 1022 0 1.28 1.212 1.041 0.7433 1.563 0.8701 0.8927 0.7401 0.7627 0.3027 0.3032 0 0.6163 0.00E+00 0.6291 0.00E+00
16 380 199 362 454 294 506 177 1022 0 0.884 0.8889 0.3762 0.2954 2.125 0.7853 0.8305 0.6045 0.5254 0.1455 0.1387 0 0.4891 1.98E-32 0.4032 3.52E-22
17 387 189 381 490 288 526 177 1038 0 1.02 1.016 0.3844 0.3012 2.109 0.7627 0.7966 0.6102 0.5537 0.1503 0.1537 0 0.4756 9.35E-31 0.4084 8.60E-23
18 547 185 364 741 287 383 177 1038 0 1.254 0.9583 0.5033 0.5515 0.8478 0.8192 0.7966 0.5763 0.4802 0.1822 0.164 0 0.4568 2.07E-28 0.3926 4.24E-21
19 0.449398239 1.039145907 2705 176 311 2897 269 338 177 1049 0 1.039 1.103 0.6611 0.7495 0.8461 0.9266 0.9379 0.791 0.8362 0.3841 0.3367 0 0.7236 0.00E+00 0.7339 0.00E+00
20 0.541737231 1.107830552 2504 167 182 2838 249 265 177 1040 0 1.108 1.199 0.6307 0.5945 1.104 0.9096 0.9209 0.7797 0.8136 0.3863 0.3627 0 0.7241 0.00E+00 0.7244 0.00E+00

Total number of rows: 17294

Table truncated, full table size 2902 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap