E-MTAB-1726 - RNA-seq of coding RNA in young and old apple (Malus domestica) leaves 72 or 96 hours after innoculation of pathogen Venturia inaequalis or mock innoculation to study the genetic origin of ontogenic scab resistance in apple leaves

Status
Last updated on 18 November 2013, released on 18 November 2013
Organism
Malus domestica
Samples (24)
Protocols (7)
Description
Ontogenic scab resistance in apple leaves and fruits is a horizontal resistance against the plant pathogen Venturia inaequalis and is expressed as decrease of disease symptoms and incidence with the ageing of the leaves. Several studies at biochemical level tried to unveil the nature of this resistance, however without any conclusive results. We decided therefore to investigate the genetic origin of this phenomenon by performing a full quantitative trascriptome sequencing and comparison of young (susceptible) and old (ontogenic resistant) leaves, infected or not with the pathogen. Two time points at 72 and 96 hours post inoculation were chosen for RNA sampling and sequencing. Comparison between the different conditions (young and old leaves, inoculated or not) should allow finding genes differentially expressed which may represent different induced plant defense reaction leading to ontogenic resistance or be the cause for a constitutive (not inoculated with the pathogen) shift toward resistance in old leaves. Differentially expressed genes were then characterized for their function by homology to A. thaliana and other plants’ genes, particularly looking for genes involved in pathways already suspected of appertaining to ontogenic resistance in apple or other hosts, or to plant defense mechanisms in general.
Experiment types
RNA-seq of coding RNA, co-expression, development or differentiation, disease state, replicate
Contacts
Citation
RNA-Seq Analysis Reveals Candidate Genes for Ontogenic Resistance in Malus-Venturia Pathosystem. Michele Gusberti, Cesare Gessler, Giovanni A. L. Broggini. PloS One 8(11):e78457 (2013), Europe PMC 24223809
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-MTAB-1726.idf.txt
Sample and data relationshipE-MTAB-1726.sdrf.txt
Processed data (24)Click to browse processed data
Links