|
| Status |
Public on Jan 26, 2008 |
| Title |
B84 11-day seedling aerial tissue biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Zea mays 11-day seedling aerial tissue genotype B84
|
| Organism |
Zea mays |
| Characteristics |
Genotype: B84; Stage: 11-day old seedling, all aerial tissue
|
| Growth protocol |
Seeds for maize inbreds and hybrids were sown and grown under greenhouse conditions for 11 days and then sampled for gene expression analysis. Three biological replicates were grown using standard greenhouse conditions (1:1 mix of autoclaved field soil and MetroMix; 16 hours light and 8 hours dark; daytime temperature of 30ºC and night temperature of 22ºC) and sampled between 8:00 and 9:00 am. The plants were cut immediately above the highest brace root, thus all above-ground tissues and meristems were collected. Each biological replicate consisted of pooled tissue from eight different seedlings of the same genotype. The sampled tissues were flash frozen in liquid nitrogen and stored at -80 C prior to RNA isolation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA samples were isolated using TRIzol (Invitrogen, Carlsbad, CA) and purified using the RNeasy system (QIAGEN, Valencia, CA).
|
| Label |
biotin
|
| Label protocol |
Eight ug of total RNA was labeled for each hybridization using the One-Cycle cDNA Synthesis Kit, according to the manufacturer’s instructions (Affymetrix, Santa Clara 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 |
Jan 22, 2008 |
| Last update date |
Jan 25, 2008 |
| Contact name |
Robert M Stupar |
| E-mail(s) |
stup0004@umn.edu
|
| Organization name |
University of Minnesota
|
| Department |
Agronomy and Plant Genetics
|
| Street address |
1991 Upper Buford Circle
|
| City |
Saint Paul |
| State/province |
MN |
| ZIP/Postal code |
55108 |
| Country |
USA |
| |
|
| Platform ID |
GPL4032 |
| Series (2) |
| GSE10236 |
Similar patterns of additive and non-additive gene expression in maize hybrids with varying levels of heterosis |
| GSE10237 |
Gene expression variation among eight maize inbreds |
|
