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Table 4 Fifteen promising candidate genes for rice salt tolerance and their associations with the targeted traits identified by haplotype analysis

From: Identification of genes for salt tolerance and yield-related traits in rice plants grown hydroponically and under saline field conditions by genome-wide association study

MSU.ID aFunctionGWAS bANOVA cTrait dEnv e
P valueR2(%)P valueR2(%) 
Os09g28910carbonic anhydrase, chloroplast precursor6.60E-053.50.00075.3TSNY17
Os02g49700homeobox associated leucine zipper5.20E-0711.81.10E-1832.7GYY17
Os06g42130leucoanthocyanidin dioxygenase7.90E-055.21.30E-058.1SSDHydroponics
Os01g18240MYB family transcription factor4.00E-055.11.50E-078.6PNY16
Os01g59660MYB family transcription factor7.70E-053.54.10E-0710.6TSNY17
Os08g06240MYB family transcription factor8.30E-054.44.70E-1524.6HDY17
Os04g51830OsHKT1;4 - Na + transporter1.60E-0510.81.90E-0514.1PNY16
Os04g51830OsHKT1;4 - Na + transporter1.80E-057.62.20E-0510.9PNY17
Os01g18210peptidyl-prolyl cis-trans isomerase, FKBP-type6.30E-054.89.10E-066.3PNY16
Os03g28300protein kinase domain containing protein1.40E-0563.90E-0610.6SSRY16
Os04g52140protein kinase domain containing protein4.70E-059.61.40E-0613.7PNY16
Os04g52140protein kinase domain containing protein9.70E-056.22.00E-0713.3PNY17
Os04g56120protein kinase domain containing protein8.80E-053.82.40E-089.7FGNY17
Os03g07480sucrose transporter3.10E-0586.40E-1426.4GYY17
Os01g23530terpene synthase5.30E-053.70.00047.1SNY17
Os05g31730transporter, monovalent cation:proton antiporter-2 family2.10E-076.25.40E-069.7SSIHydroponics
Os05g31730transporter, monovalent cation:proton antiporter-2 family2.00E-056.12.90E-0512.2SSDHydroponics
Os01g06590zinc finger, C3HC4 type domain containing protein8.20E-057.24.90E-0613.4FGNY17
  1. aGene names from the MSU Rice Genome Annotation Project Database; b GWAS statistics for peak SNP within the gene; c ANOVA for haplotypes of the gene with target traits; d For trait name abbreviations see Fig.