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Table 2 Significant marker-trait associations for 378 individuals of the OxG population for morphological and yield-related traits using a mixed linear model approach

From: Genome-wide association study (GWAS) for morphological and yield-related traits in an oil palm hybrid (Elaeis oleifera x Elaeis guineensis) population

CategoryTraitSNPChromosomePosition (kb)p-valueMAFR2FDR adjusted p-valuesNearby geneSNP position relative to the candidate gene*Candidate gene annotation
MorphologicalLDWS3_30,467,222330,467,2221.E-040.1060.1070.050p5.00_sc00100_p00170Mechanosensitive ion channel protein 10-like (MSL10)
TDS15_21,239,8331521,239,8331.98E-050.4930.0970.010p5.00_sc00036_p0097+ 21.8 kbNucleic acid binding
HT
TD
FA
LA
S15_22,347,1911522,347,1917.94E-050.4960.0980.084p5.00_sc00036_p0145+ 0.3 kbPaired amphipathic helix protein (PAH)
S15_22,553,4891522,553,4897.94E-050.4960.0980.084p5.00_sc00036_p0152−0.6 kbSerine threonine-protein kinase (STYK)
S15_22,553,4931522,553,4938.90E-050.4950.0980.084
S15_23,645,0201523,645,0207.94E-050.4960.0980.084p5.00_sc00036_p02170Class E vacuolar protein-sorting machinery protein (VPS)
RL
LXL
S13_20,856,7241320,856,7243.22E-050.4990.0740.041p5.00_sc00035_p0180−12.0 kbGuanine nucleotide-binding protein subunit gamma (AGC3)
S13_23,674,2271323,674,2273.22E-050.4990.0740.041p5.00_sc00035_p00780Extracellular ribonuclease (RNAse)
S13_25,522,0881325,522,0883.22E-050.4990.0740.041p5.00_sc00128_p00010lmbr1 domain-containing protein (IMBR1)
S13_24,474,5161324,474,5167.14E-050.4970.0700.067p5.00_sc00035_p00430Probable ran guanine nucleotide release factor-like (RANGRF)
ProductionYield
BN
S5_41,396,842541,396,8421.E-040.1320.0590.410p5.00_sc00003_p0367+ 29 kbCation h(+) antiporter
BWS10_21,597,4261021,597,4263.E-040.4990.0540.316p5.00_sc00036_p0097−8.0 kbZinc finger protein 8-like (ZFP)
  1. * SNP position relative to the closest candidate gene: upstream and downstream SNPs of candidate genes are specified with “–” and “+,” respectively. 0 indicates that SNPs are located within the candidate gene