NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE71428 Query DataSets for GSE71428
Status Public on Jul 29, 2015
Title Microarray Expression profiling of susceptible (CO-3) and resistant (EC-520061) genotype of tomato in response to Early Blight pathogen after 24hrs of inoculation
Platform organism Solanum lycopersicum
Sample organisms Solanum lycopersicum; Solanum habrochaites
Experiment type Expression profiling by array
Summary A comparative study ware made to know the Early Blight resistance mechanism between resistant and susceptible plants at vegetative stage.
Transcriptional changes during compatible and resistant reaction between A. solani and tomato genotypes have been identified using Affymetrix tomato gene chips. Results were confirmed by reverse transcription-polymerase chain reaction with the samples collected after 24hrs of inoculation from inoculated and control susceptible and resistant genotypes. The number of up and down regulated genes in three different combinations of treatments i.e. Early Blight Resistant Treated and Control (EBTT and EBTC) and Early Blight Suceptible Treated and Control (EBST and EBSC) has observed and compared. In EBST vs. EBSC condition, 3478 genes are up regulated and 2663 are down regulated. Similarly when analysis is done between EBST and EBRT, 2475 genes are up regulated and 3662 are down regulated. Total 3442 genes are up regulated and 2695 genes are found to be down regulated in resistant line of tomato for early blight when the analysis is done for EBRT Vs. EBRC. These genes, that are induced in the resistant genotype EC-520061(Solanum habrochaites , wild) of tomato, after Alternaria solani infection, have been classified in to following categories, response to stress, cellular component, Metabolic activity, regulation of transcription, regulation of translation, and few were unknown. Data from this study are a resource for understanding the mechanism, which works for resistance against pathogen of early blight in tomato, which is critical and will be useful in improving this trait through transgenic approach or gene silencing.
 
Overall design Tomato plants were exposed to A. solani spores and after 24 hrs (at the stage of penetration of tissues with fungal hyphae) samples were collected from both susceptible and resistant genotypes for RNA extraction and hybridization on Affymetrix chips. To study the molecular mechanism of biotic stress resistance, transcripts of both the genotypes were compared in response to A. solani.
 
Contributor(s) Priti U, Ashutosh R, Major S, Rajesh K, Brajesh S
Citation(s) 26697364
Upadhyay P, Rai A, Kumar R, Singh M, Sinha B (2014) Differential Expression of Pathogenesis Related Protein Genes in Tomato during Inoculation with *A. Solani*. J Plant Pathol Microb 5:217. http://dx.doi.org/10.4172/2157-7471.1000217
Submission date Jul 28, 2015
Last update date Jan 19, 2016
Contact name PRITI UPADHYAY
E-mail(s) priti.iasbhu@gmail.com
Organization name BANARAS HINDU UNIVERSITY
Department GENETICS AND PLANT BREEDING
Street address VARANASI
City VARANASI
ZIP/Postal code 221005
Country India
 
Platforms (1)
GPL4741 [Tomato] Affymetrix Tomato Genome Array
Samples (12)
GSM1834098 Early Blight Susceptible Control-1
GSM1834099 Early Blight Susceptible Control-2
GSM1834100 Early Blight Susceptible Control-3
Relations
BioProject PRJNA291183

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
GSE71428_RAW.tar 16.0 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap