|
| Status |
Public on Jun 21, 2007 |
| Title |
Mo17 11-day seedling aerial tissue biological replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
Zea mays 11-day seedling aerial tissue genotype Mo17
|
| Organism |
Zea mays |
| Characteristics |
Genotype: Mo17 Stage: 11-day old seedling, all aerial tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Seeds for inbreds Mo17 and B73 and hybrids Mo17 x B73 and B73 x Mo17 were sown and grown under greenhouse conditions for 11 days and then sampled for gene expression analysis. Three biological replicates were planted and grown sequentially over an 5-week period during May 2005. Seeds were planted such that one seed of each genotype was present in every pot. Twelve pots were selected for tissue collection; thus 12 plants were sampled per genotype. All plants were sampled between 9 am and 10 am and plants were cut immediately above the highest root; thus all aboveground tissues and meristems were sampled. The sampled tissues were flash frozen in liquid nitrogen and stored at -80 C prior to RNA isolation.
|
| Label |
biotin
|
| Label protocol |
For seedling RNA isolation, tissues from 12 seedlings/genotype/biological replicate were pooled and ground in liquid nitrogen. RNAs were extracted using Trizol reagent according to the manufacturer’s instructions (Invitrogen, Carlsbad, CA). All RNAs were subsequently subjected to DNAse treatment and phenol:chloroform extraction. RNAs were precipitated with 0.13 volume sodium acetate (pH 5.5) and 2.53 volume ethanol. Resuspended RNAs were purified further using the RNeasy system, according to the manufacturer’s instructions (QIAGEN, Valencia, CA).
|
| |
|
| Hybridization protocol |
Hybridization was performed according to the recommended Affymetrix protocols at the University of Minnesota Microarray facility.
|
| Scan protocol |
The Genechip 3000 scanner was used to scan each array
|
| Description |
refer to PMID: 16702414
|
| Data processing |
MAS5.0 values are reported; the .cel file is also available
|
| |
|
| Submission date |
Jun 19, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
Nathan M Springer |
| E-mail(s) |
springer@umn.edu
|
| Phone |
6126246241
|
| Fax |
6126251738
|
| Organization name |
University of Minnesota
|
| Department |
Plant Biology
|
| Street address |
1445 Gortner Ave
|
| City |
Saint Paul |
| State/province |
MN |
| ZIP/Postal code |
55108 |
| Country |
USA |
| |
|
| Platform ID |
GPL4032 |
| Series (2) |
| GSE8174 |
Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Seedling data |
| GSE8194 |
Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression |
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