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Status |
Public on Nov 30, 2014 |
Title |
newly synthetic triploid_rep2 |
Sample type |
RNA |
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Source name |
S0_SynT124, replicate 2
|
Organism |
Triticum dicoccon x Aegilops tauschii subsp. strangulata |
Characteristics |
tissue: leaf age: two leaves seedling
|
Treatment protocol |
Ttriploid embryos were rescued 2 weeks later after pollination. Embryos were placed petridishes with half strength of Murashige & Skoog culture medium (Inagaki et al. 1998) in growth chamber which is maintained at 20℃, 12-h light/12-h dark (5000 lux). Chromosome-doubled hexaploid plants obtained by self-pollination of colchicine treated (0.2% in a 2% DMSO solution) of triploid plants.
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Growth protocol |
All plants were grown in growth chamber controlled by at 22℃, relative humidity 40%, in 16 h length with 6000 lux (64,560 fc) and 8 h dark day cycles.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA of each line was extracted using Plant RNeasy Mini Kit (Qiagen) according to the manufacturer’s method.
|
Label |
Cy3
|
Label protocol |
Extracted RNAs (500ng) were labelled using the Agilent Low RNA Input Fluorescent Linear Amplification kit (Agilent Technologies) with cyamine 3-cytidine 5C-triphosphate (CTP).
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Hybridization protocol |
Hybridization of the Cy3-labeled cRNA to the microarrays and washing were performed using a Gene Expression Hybridization kit and Gene Expression Wash Pack (Agilent Technologies) according to the manufacturer's instructions.
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Scan protocol |
After washing, signal intensities were immediately detected by Feature Extraction software (Agilent Technologies). Slides were scanned on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 5um, Dye channel is set to Green and Green PMT is XDR Hi 100% and XDR Li 10%).
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Description |
Gene expression of newly synthetic triploid
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Data processing |
Signal intensities were detected from the obtained digital images with Feature Extraction software 9.5 (Agilent Technologies). Fluorescence intensities were analysed with GeneSpring GX v12.6 (Agilent Technologies). Raw data set (raw signal intensity > 1.0 threshold) was transformed to log scale at base 2. Normalization was performed with GeneSpring.
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Submission date |
Jan 24, 2014 |
Last update date |
Jan 12, 2015 |
Contact name |
Yeonju Jung |
E-mail(s) |
congdan2@gmail.com
|
Organization name |
Kihara Institute for Biological Research
|
Department |
Yokohama City University
|
Lab |
Plant Genome Science
|
Street address |
Maioka-cho 641-12
|
City |
Yokohama |
State/province |
Kanagawa |
ZIP/Postal code |
244-0813 |
Country |
Japan |
|
|
Platform ID |
GPL9805 |
Series (1) |
GSE54398 |
Expression profiles of synthetic wheat lines and their parents during amphidiploidization |
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