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Sample GSM10305 Query DataSets for GSM10305
Status Public on Oct 29, 2003
Title seedling leaf-8h UV-B
Sample type RNA
 
Channel 1
Source name UV-B exposed leaves
Organism Zea mays
Extracted molecule total RNA
 
Channel 2
Source name control leaves (-)UV-B
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 -0.461963774 0.72599737 2056 400 498 2618 337 472 156 1195 0 1.377 1.381 1.313 0.9046 1.507 0.9679 0.9423 0.8846 0.891 0.1592 0.1825 0 0.8247 0.00E+00 0.7767 0.00E+00
2 -0.579782262 0.669064748 1972 391 476 2688 325 445 156 1009 0 1.495 1.424 1.277 0.8569 1.587 0.9872 1 0.9359 0.9808 0.1426 0.1748 0 0.8568 0.00E+00 0.8731 0.00E+00
3 -0.497499659 0.708333333 2528 369 443 3361 313 406 156 1009 0 1.412 1.409 1.324 0.9254 1.471 1 1 1 1 0.1141 0.1325 0 0.9609 0.00E+00 0.9703 0.00E+00
4 0.46712601 1.382352941 843 373 451 656 316 413 156 1009 0 0.7234 0.7491 0.6812 0.753 0.8755 0.8141 0.8013 0.6538 0.5962 0.1323 0.1515 0 0.4764 1.16E-27 0.4262 3.20E-22
5 0.545741191 1.459770115 998 363 411 737 302 364 156 1009 0 0.685 0.6475 0.3068 0.5513 0.3803 0.9359 0.9103 0.7372 0.75 0.1484 0.1514 0 0.6039 3.50E-44 0.566 7.31E-39
6 0.390050816 1.31043956 818 341 354 647 283 328 156 987 0 0.7631 0.7438 0.6466 0.7917 0.7752 0.7628 0.7949 0.6282 0.6346 0.1489 0.1499 0 0.5057 5.14E-31 0.4587 1.35E-25
7 -1.464833045 0.362277461 2486 329 332 6235 281 327 156 984 0 2.76 2.691 2.408 0.8719 3.077 0.9231 0.9423 0.8333 0.859 0.2995 0.3366 0 0.7924 0.00E+00 0.7714 0.00E+00
8 -1.395700356 0.380060143 3615 329 339 8927 281 328 156 1010 0 2.631 2.54 2.301 0.8918 2.814 0.9167 0.9487 0.8013 0.8782 0.3062 0.3872 0 0.741 0.00E+00 0.7997 0.00E+00
9 -1.433970837 0.370110806 4211 303 359 10831 272 324 156 1038 0 2.702 2.614 2.52 0.897 3.062 0.9872 0.9551 0.8654 0.8846 0.3 0.3841 0 0.7384 0.00E+00 0.7981 0.00E+00
10 0.210085526 1.156756757 702 274 355 642 272 324 156 1028 0 0.8645 0.8988 0.7652 0.8373 0.898 0.7244 0.7244 0.5641 0.5321 0.163 0.1674 0 0.3315 1.22E-13 0.3664 1.43E-16
11 257 294 329 279 271 302 156 1018 0 0 1.091 0.4618 0.5479 0.7345 0.2692 0.4872 0.05769 0.09615 0.08999 0.1108 2 0.2399 2.43E-07 0.08015 3.37E-01
12 0.042704451 1.030042918 534 294 371 496 263 1151 156 987 0 0.9708 1.016 4.627 0.643 11.07 0.8333 0.859 0.5064 0.5577 0.192 0.181 0 0.3751 2.92E-17 0.4504 1.09E-24
13 -0.592730024 0.663086954 36624 318 455 55027 274 2132 156 1012 0 1.508 1.492 1.355 0.9361 1.483 0.9872 0.9936 0.9615 0.9615 0.2879 0.1916 0 0.9285 0.00E+00 0.8815 0.00E+00
14 -0.599517773 0.659974518 36570 311 619 55218 278 2624 156 1015 0 1.515 1.511 1.341 0.9309 1.478 1 0.9936 0.9936 0.9744 0.2949 0.1714 0 0.893 0.00E+00 0.8679 0.00E+00
15 -1.035941858 0.487697385 23607 258 509 48130 254 1576 156 1012 0 2.05 2.103 1.793 0.9262 2.026 0.9936 1 0.9423 1 0.3316 0.2797 0 0.9127 0.00E+00 0.9407 0.00E+00
16 0.023311558 1.016289593 1384 261 325 1352 247 296 156 1037 0 0.984 0.9601 0.8256 0.7649 1.105 0.8333 0.8526 0.75 0.7436 0.2831 0.2834 0 0.6575 0.00E+00 0.6175 0.00E+00
17 0.165789586 1.121779859 724 245 302 660 233 264 156 1009 0 0.8914 0.9472 0.5923 0.6264 0.9146 0.7372 0.7564 0.6282 0.5962 0.2136 0.2201 0 0.4489 1.34E-24 0.4947 8.60E-30
18 0.178597303 1.131782946 679 241 292 628 241 282 156 1009 0 0.8836 0.9531 0.6761 0.745 0.8781 0.7756 0.7564 0.5321 0.5128 0.2412 0.2562 0 0.3314 1.34E-13 0.3409 2.28E-14
19 0.468106128 1.383292383 841 278 338 685 278 326 156 1000 0 0.7229 0.7841 0.6109 0.7769 0.7352 0.9872 0.9359 0.9038 0.7949 0.1713 0.1631 0 0.7045 0.00E+00 0.6146 1.40E-45
20 0.186272996 1.137820513 678 323 366 612 300 362 156 1018 0 0.8789 0.8395 0.666 0.3888 3.216 0.9295 0.9038 0.7885 0.6795 0.1398 0.1374 0 0.6055 1.82E-44 0.5219 3.83E-33

Total number of rows: 16928

Table truncated, full table size 2851 Kbytes.




Supplementary data files not provided

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