Plant Stress Ontology
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Transcript of Plant Stress Ontology
Plant Stress Ontology
Pankaj Jaiswal
Organization• Abiotic Stress
– Water stress (EO)– Temperature stress (EO)– Photoperiod stress (EO)– Gravity stress (EO)– Chemical stress (CHEBI)– Wind stress (EO)
• Biotic Stress– Symbiotic stress
• Symbiont Host Organism (taxon)• Causal Organism (taxon)
• Plant Disease (http://www.apsnet.org/publications/commonnames/Pages/Rice.aspx) – List of diseases
• Causal agent – Biotic agent (taxon)– Abiotic Agent (ChEBI/EO)
• Host Organism (taxon)
Environment Ontology
• http://crop.cgrb.oregonstate.edu/amigo/cgi-bin/crop_amigo/browse.cgi?action=plus_node&target=EO:0007191&open_1=EO:0007359,TO:0000387,TO:0000164,all&session_id=9308amigo1368640022
Plant (Disease) Stress Ontology
Disease: Bacterial leaf blight | Occurring_in Species: Oryza sativa (rice) | Caused_by: Xanthomonas oryzae. | has_symptom: leaf lesions | infects_at: 1-5 leaf seedling growth | found_in: Northern territoriers part_of Australia
X
Y
Z
Disease/ stress
Host
Pest/Pathogen
OrganismTaxonomy
Geographical location
Symptom
Value
Plantstructure
Plant growth stage
Etiological agent
Biotic agent Abiotic agent
Environment
Trait Quality PlantDO
Occ
urrs
_in
Occ
urrs
_in
Par
t_o
f
Cau
sal_
agen
t
for
infects
Infects_at
isa
has
has
isa
isa
Germplasm
Isolate
Host gene(s)
Pest/Pathogen gene(s)
Molecular Function
Biological Process
Cellular location
has
has
has
has
isa
isa
isa
associated
Developmental stage
Plant (Disease) Stress Ontology
bears
bears
has
Orthogonal set of ontologiesA: Plant Disease Ontology (PlantDO)
B: Gramene Taxonomy ontology (GR_tax)
C: Environment Ontology (EO/ENVO)
D: Trait Ontology (TO)
E: Phenotype attribute Ontology (PATO)
F: Plant Ontology (PO)
F1: Plant structure
F2: Plant growth stages
G: Gazetteer (GAZ)
Distribution of rice bacterial leaf blight causal agent X. oryzae in rice growing areas of Australia. Aldrik et al (1973).
Map Image source: http://en.wikipedia.org/wiki/States_and_territories_of_
Australia
Plant Disease Ontology and links to various
orthogonal ontologies.
A rice bacterial leaf blight example.
Rice leaves of plants resistant or susceptible to rice bacterial leaf blight .
(Kaur et al. 2005)