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Sample GSM382233 Query DataSets for GSM382233
Status Public on May 13, 2009
Title Root_Hg2
Sample type RNA
Source name Barley roots exposed to 1000 uM Hg
Organism Hordeum vulgare
Characteristics tissue: root
agent: HgCl2
Growth protocol Barley (Hordeum vulgare L. cv. Graphic) seeds were carefully chosen with similar weight, shape and size and sown in 1 L pots containing sand in a glasshouse for 15 days (Experimental Fields of the University of Barcelona) and irrigated with a half strength Hoagland solution containing either 0 µM (control), 500 µM or 1000 µM of HgCl2. Daily means of temperature, relative humidity and maximum irradiance in the glasshouse throughout the experiment were 16ºC, 45% and 378 Wm-2, respectively. For root and shoot dry weight, 5 plantlets were sampled, immediately frozen in liquid nitrogen, lyophylized and dry weights were recorded and shoot to root ratio calculated. Additional three plantlets per treatment (only controls and 1000 μM HgCl2) were sampled and the entire roots were separated from leaves, washed with de-ionized water and immediately frozen in liquid N and kept at -80ºC until use for RNA extractions.
Extracted molecule total RNA
Extraction protocol Trizol reagent and Rneasy Quiagen
Label biotin
Label protocol Standard Affymetrix procedures.
Hybridization protocol Standard Affymetrix procedures.
Scan protocol Standard Affymetrix procedures.
Description All sample extraction and micro chip manipulation were carried out at PROGENIKA, in SPAIN (Bilbao)
Data processing Normalization was carried out in 2 steps: using GeneSpring v7.1 (Agilent) and previously scaled with GCOS.
Submission date Mar 19, 2009
Last update date May 12, 2009
Contact name Marta Silva Lopes
Fax 525558047558
Organization name cimmyt
Department wheat physiology
Street address km 45, carretera Mexico-Veracruz, El Batan, Texcoco
City Texcoco
State/province Mexico
ZIP/Postal code 56130
Country Mexico
Platform ID GPL1340
Series (1)
GSE15295 Mercury toxicity in barley roots

Data table header descriptions
VALUE normalized signal intensity

Data table
Contig23856_at 0.79989076
Contig19597_at 2.2609906
Contig23204_at 1.5103462
Contig10980_at 1.1565205
HA12D17u_at 2.034012
Contig20794_at 0.10065252
HD11L13r_at 27.940632
Contig20142_at 0.6601843
Contig2681_at 3.050987
Contig3149_at 1.3034067
HVSMEg0009O12r2_at 0.28997734
Contig8323_at 2.3942118
HVSMEf0010D24f2_x_at 0.27047658
Contig19747_at 0.46797392
rbags25i16_x_at 0.06653487
Contig8493_at 0.39132667
Contig9740_s_at 0.6458645
HW08C04u_at 2.5835178
Contig13710_at 1.104406
Contig19265_at 4.5705776

Total number of rows: 22795

Table truncated, full table size 564 Kbytes.

Supplementary file Size Download File type/resource
GSM382233.CEL.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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