Additional file 1 of Genetic Diversity and Breeding Signatures for Regional Indica Rice Improvement in Guangdong of Southern China

Additional file 1: Table S1. Information for accessions used in this study. Table S2. Quality assessment of genome sequencing data. Table S3. Genome mapping quality and genome coverage of genome sequencing data. Table S4. Genomic variations for 517 indica rice accessions against the MSU reference genome. Table S5. Number of deleterious variations in subpopulation of landrace and cultivar. Table S6. Genotyping results 319 quantitative trait nucleotidesof the 212 vital gene in rice from RiceNavi database. Table S7. Genomic segments that identified as breeding signatures between Ind IV and Ind II. Table S8. Genomic segments that identified as breeding signatures between Ind I and Ind II. Table S9. QTLs and known genes that identified by GWAS of eleven agronomic traits for Guangdong indica rice. Table S10. Allele combinations of plant heightgenes of Guangdong indica rice germplasm. Table S11. Allele combinations of thousand grain weight, grain length, grain widthand grain length width ratiogenes of Guangdong indica rice germplasm. Table S12. Phenotypic effect assessment of known QTNs that genotyped by RiceNavi. Table S13. Genotyping of 4 eating quality genes.