NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE97697 Query DataSets for GSE97697
Status Public on May 01, 2018
Title RNA seq analysis of pathogen-induced transcriptome changes in tomato plants overexpressing the Arabidopsis ELP4 gene
Organism Solanum lycopersicum
Experiment type Expression profiling by high throughput sequencing
Summary The goal of the RNA seq was to investigate the transcriptome changes induced by Pseudmonas syringae pv. tomato J4 in wild-type tomato 'Moneymaker' and transgenic 'Moneymaker' overexpressing the Arabidopsis ELP4 (AtELP4) gene. Results showed that P. syringae pv. tomato J4 induced dramatic transcriptional changes in both the wild-type and transgenic tomato plants. Interestingly, a group of defense genes including PR-5x, Pti5, PR1b1, and CHI3/9/14/17, which are associated with resistance to the hemibiotrophic bacterial pathogen Ralstonia solanacearum, were induced to higher levels in the AtELP4 transgenic tomato than in the wild type at 8 and 24 hr after P. syringae pv. tomato J4 infection. These results indicate that overexpression of AtELP4 in tomato leads to faster and/or stronger induction of some defense genes.
 
Overall design Three replicates with leaves from 6 plants per genotype were collected at 0, 8, and 24 hr after P. syringae pv. tomato J4 infection. Leaf tissues were collected and subjected to total RNA extraction. After extraction, RNA concentration was determined on a NanoDrop Spectrophotometer (Thermofisher Scientific, Waltham, MA) and sample quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). The RNA samples from the three biological replicates were pooled and equal amounts of RNA from the pooled samples were used for RNA seq analysis.
 
Contributor(s) Pereira JA, Zhang Y, Yu F, Jones JB, Mou Z
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Apr 12, 2017
Last update date May 15, 2019
Contact name FAHONG YU
E-mail(s) FYU@ufl.edu
Phone 3522738064
Organization name UNIVERSITY OF FLORIDA
Department ICBR
Street address 2033 Mowry Rd
City GAINESVILLE
State/province FL
ZIP/Postal code 32610
Country USA
 
Platforms (1)
GPL23294 Illumina HiSeq 3000 (Solanum lycopersicum)
Samples (6)
GSM2575616 0hr_wild type
GSM2575617 0hr_transgenic plant
GSM2575618 8hr_wild type
Relations
BioProject PRJNA382680
SRA SRP103835

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE97697_RAW.tar 780.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.