|
| Status |
Public on Feb 01, 2007 |
| Title |
Tomato_Rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Tomato host tissue
|
| Organism |
Solanum lycopersicum |
| Characteristics |
Lycopersicon esculentum (cv. Ailsa Craig)
|
| Treatment protocol |
Lespedeza dodder (Cuscuta pentagona) seeds were scarified by soaking in concentrated sulfuric acid for one hour, rinsed thoroughly in water, and planted around the base of two-week old tomato seedlings. Host leaf tissue from parasitized plants, but not including dodder tissue, was harvested. All tissues were immediately frozen in liquid nitrogen and stored at -80ºC.
|
| Growth protocol |
Tomato plants were grown in Metro Mix 360 potting medium (Griffin Greenhouse and Nursery Supplies, Richmond, VA) under greenhouse conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA (1-1.5 g) was extracted from tomato by grinding in liquid nitrogen, and extracted using TRIzol reagent (Invitrogen, Carlsbad, CA). The RNA was precipitated with 100% isopropanol followed by a second precipitation with 100% ethanol and 3M sodium acetate (pH 5.2). The RNA pellet was dissolved in DEPC-treated water and treated with DNase using a DNA-free Kit (Ambion, Austin, TX).
|
| Label |
Biotin
|
| Label protocol |
A linear amplification of total RNA was performed using Ovation Biotin RNA Amplification and Labeling System (NuGEN, San Carlos, CA).
|
| |
|
| Hybridization protocol |
Hybridization was conducted according to Affymetrix standard procedure and performed by the Virginia Bioinformatics Institute Core Laboratory.
|
| Scan protocol |
Scanning was conducted according to Affymetrix standard procedure and performed by the Virginia Bioinformatics Institute Core Laboratory.
|
| Description |
The objective of this experiment was to assay for movement of mRNA from tomato (host) into dodder (parasitic plant). This tomato sample served as a control to establish a profile of expressed genes in the host.
|
| Data processing |
Data was not processed beyond the values provided by the Affymetrix intensity values.
|
| |
|
| Submission date |
Jan 12, 2007 |
| Last update date |
Jan 17, 2007 |
| Contact name |
James H Westwood |
| E-mail(s) |
westwood@vt.edu
|
| Phone |
540-231-7519
|
| Fax |
540-231-3347
|
| Organization name |
Virginia Tech
|
| Department |
Plant Pathol. Physiol. Weed Sci.
|
| Street address |
401 Latham Hall
|
| City |
Blacksburg |
| State/province |
VA |
| ZIP/Postal code |
24061-0390 |
| Country |
USA |
| |
|
| Platform ID |
GPL4741 |
| Series (1) |
| GSE6736 |
Trafficking of mRNA from tomato to dodder |
|
