NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM10321 Query DataSets for GSM10321
Status Public on Oct 29, 2003
Title immature ear-8H UV-B
Sample type RNA
 
Channel 1
Source name UV-B exposed
Organism Zea mays
Extracted molecule total RNA
 
Channel 2
Source name control
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 GPL498
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 (J-K)/(M-N) 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 (J-K)/(M-N) 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 0.344082074 1.269343097 4723 330 505 2695 291 389 156 1205 0 0.5472 0.5432 0.5503 0.9612 0.561 1 0.9808 0.9936 0.9551 0.1568 0.1648 0 0.9455 0.00E+00 0.8988 0.00E+00
2 0.330859681 1.257762634 4293 333 684 2488 301 473 156 1009 0 0.5523 0.5539 0.5376 0.9554 0.5493 1 1 1 1 0.138 0.1399 0 0.9208 0.00E+00 0.9035 0.00E+00
3 0.283794217 1.21739236 4397 324 588 2611 287 411 156 1001 0 0.5706 0.5518 0.5342 0.9589 0.5447 0.9872 1 0.9423 0.9808 0.1894 0.1769 0 0.8529 0.00E+00 0.8912 0.00E+00
4 1129 314 437 762 275 324 156 981 0 0.5975 0.6219 0.4963 0.8648 0.5312 0.9038 0.8718 0.7564 0.7564 0.2086 0.179 0 0.6836 0.00E+00 0.6613 0.00E+00
5 1131 316 427 775 273 351 156 987 0 0.616 0.631 0.5242 0.6643 0.7028 0.9295 0.891 0.7821 0.7821 0.2094 0.2078 0 0.7236 0.00E+00 0.6899 0.00E+00
6 1236 321 430 804 277 375 156 1008 0 0.576 0.5973 0.5897 0.6871 0.8012 0.9487 0.9103 0.859 0.8141 0.2231 0.1976 0 0.777 0.00E+00 0.7219 0.00E+00
7 -0.094676393 0.936482283 12974 320 413 9666 280 366 156 1019 0 0.7417 0.7307 0.7343 0.9706 0.7504 0.9423 0.8974 0.8462 0.8141 0.3591 0.3395 0 0.7637 0.00E+00 0.7316 0.00E+00
8 -0.070475427 0.952324117 13633 318 404 9991 279 373 156 1009 0 0.7294 0.7022 0.7115 0.9728 0.7253 0.9744 0.9615 0.8974 0.9038 0.3814 0.3622 0 0.8327 0.00E+00 0.833 0.00E+00
9 -0.106685974 0.928718981 13435 315 449 10091 278 377 156 1001 0 0.7479 0.7331 0.7387 0.9608 0.7608 0.9551 0.9551 0.8846 0.8782 0.3755 0.3688 0 0.8013 0.00E+00 0.8044 0.00E+00
10 -0.049802173 0.96606879 4171 313 559 3055 281 438 156 1019 0 0.719 0.6839 0.6891 0.8972 0.7458 0.9679 0.9808 0.9551 0.9231 0.2189 0.2299 0 0.8628 0.00E+00 0.8391 0.00E+00
11 0.017952631 1.012521562 4288 313 656 3009 282 478 156 1009 0 0.686 0.6894 0.5643 0.875 0.6084 0.9359 0.9487 0.891 0.9231 0.2478 0.2394 0 0.7455 0.00E+00 0.7915 0.00E+00
12 -0.007254102 0.99498446 3782 307 728 2701 275 504 156 989 0 0.6981 0.7261 0.6197 0.9141 0.6549 0.9167 0.9038 0.8205 0.8397 0.227 0.2276 0 0.717 0.00E+00 0.7501 0.00E+00
13 -0.494035129 0.71003639 51408 304 604 50262 267 451 156 991 0 0.9783 1.001 0.9552 0.983 0.9712 0.9936 1 0.9808 1 0.2591 0.2696 0 0.9235 0.00E+00 0.964 0.00E+00
14 -0.403085736 0.756239056 50847 301 413 46690 262 381 156 1023 0 0.9185 0.9249 0.9315 0.9837 0.9461 1 0.9936 0.9936 0.9872 0.266 0.2882 0 0.972 0.00E+00 0.9421 0.00E+00
15 -0.4031458 0.756207572 52503 300 409 48211 259 440 156 997 0 0.9186 0.9546 0.9405 0.9829 0.9561 1 1 1 0.9936 0.2556 0.278 0 0.9826 0.00E+00 0.9503 0.00E+00
16 0.072156263 1.051286771 6375 300 382 4269 255 390 156 1003 0 0.6607 0.6485 0.7024 0.9366 0.7359 0.9936 0.9744 0.9038 0.9167 0.3627 0.3713 0 0.8386 0.00E+00 0.8511 0.00E+00
17 0.228266134 1.171426254 5993 298 369 3630 253 299 156 1061 0 0.593 0.582 0.5848 0.966 0.5956 0.9744 0.9487 0.891 0.8654 0.3229 0.2972 0 0.8435 0.00E+00 0.812 0.00E+00
18 0.258233824 1.196013624 6021 296 530 3584 259 390 156 1016 0 0.5808 0.5857 0.5545 0.9291 0.5757 0.9679 0.9167 0.859 0.8526 0.284 0.2694 0 0.7803 0.00E+00 0.7699 0.00E+00
19 0.602840348 1.518703617 9846 296 617 4628 260 423 156 963 0 0.4574 0.4564 0.4373 0.9364 0.4473 1 1 1 1 0.1672 0.1618 0 0.9591 0.00E+00 0.9678 0.00E+00
20 0.671700503 1.592949469 8917 299 841 4026 268 542 156 1007 0 0.4361 0.4317 0.4237 0.9299 0.434 1 1 1 1 0.1399 0.1388 0 0.9275 0.00E+00 0.9384 0.00E+00

Total number of rows: 16928

Table truncated, full table size 2820 Kbytes.




Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap