Rice Phenotype Search and Summary
Rice Phenotype Classification:Trait Statistics:
Class SubClass Num. Traits Num. Total Record Num.
Abiotic_stress 6 16 120455
Biotic_stress 4 17 150563
Morphological 8 82 3471369
Quality 4 44 586844
Agronomical 10 59 1309065
Total (non redundant)1804495566

Information Statistics:
Class SubClass Num. Item Num. Total Record Num.
Germplasm_info 6 12 598759
Sample_info 4 11 136690
The Rice Phenotype Classification based on Standard Evaluation System (SES) for Rice, IRRI, 2013, Chinese Crop Germplasm Information System (CGRIS), and Plant Trait Ontology. The traits were classified to which subclasses was checked by manually basis on principle of ontology.More see Rice phenotype traits glossary
In addition to describe the phenotype traits, farming, environment, experiment information were stored in the categories of "Samples_info", breeding, preserve and some germplasm-related information were classified in the categories of "Germplasm_info", which stored in Germplasm database.
In our phenotype database, there are three level sources of data:
Level-Ⅰ: Phenotype data from germplasm resources databases or books;
Level-Ⅱ: Phenotype data from different published population GWAS samples;
Level-Ⅲ: Phenotype data from different field samples. which cultivated under different environment and experimental treatment;

In order to achieve the correlation analysis between Phenotype with Genotype data, The final phenotype database come from the integration of the three source!

For example: there have 4363 whole genome sequencing (WGS) sample in rice genotype database, the corresponding phenotype data sources were showed in below table:

WGS PopulationSample Num.Phenotype Data Source
Level-ⅠLevel-ⅡLevel-Ⅲ
Rice3k30302527--
MBK1161662-841
Japan17417240172-
Phenotype Object, different crops phenotype collection and description method have been standardized in each country's department of agriculture, in addition, we believe that a scientific phenotype description should also consider multi-dimensional factors such as farming,environment,experiment information(which has been named Envirotype) and so on.