Additional file 1 of Identification of an Elite Core Panel as a Key Breeding Resource to Accelerate the Rate of Genetic Improvement for Irrigated Rice

Additional file 1: Table S1. List of all lines 15,286 of the irrigated breeding program selected for the analysis of genetic gain. The following information are available: designation (name of the lines), GID (identification number), parentage, year of the initial cross, type of entry (breeding lines or IRRI released varieties), ECP (belong or not to the elite core panel), equivalent complete generation (EqG), breeding value for yield corrected from flowering time. Table S2. Genotypic data for 66 ECP and 10 IRRI varieties from the breeding program on 703 SNP from the 1k-RiCA platform. The data are in hapmap format. Table S3. Information on the 37 high-value genes related to abiotic stresses. The favorable allele frequency is reported for 33 genes which had sufficient data. Table S4. Combined genotypic data of ECP and 3K-RG indica accessions formatted as a dosage matrix with SNP genotypes coded as 0, 0.5, 1. Table S5. Results of the evaluation of the elite core panel against blast disease. The average infection score to five highly virulent Magnaporthe oryzae isolates measured in controlled conditions are reported along with the favorable alleles (if any) for each line. The resistant and susceptible checks are also included. Table S6. Results of the evaluation of the elite core panel against bacterial leaf blight. The average average lesion length (based on six plants) to fourteen isolates of Xanthomonas oryzae pv. oryzae measured in controlled conditions are reported along with the favorable alleles (if any) for each line. The resistant and susceptible checks are also included. Table S7. Studies conducted in the target regions for IRRI's irrigated rice breeding program to evaluate the performance of the elite core panel (ECP) lines in 2019.