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Table 2 Lignin QTL regions, the significant SNPs, and candidates in the QTL regions in 2014; the significant SNPs are selected by p value < 0.001 equal to Log10p value > 3.0

From: Association mapping identifies quantitative trait loci (QTL) for digestibility in rice straw

Chromosome (CH) QTL regions (Mbp) No of significant SNPs in QTL regions Most significant p value of SNP in QTL regions MAFa R2 (%)b Candidate genes
1 CH1_41.0 ± 0.2 9 8.96E−06 0.24 15.9  
2 CH2_5.5 ± 0.2 24 5.19E−06 0.47 17.4  
3 CH3_14.7 ± 0.2 1 8.21E−04 0.3 9.18 7 peroxidases
8 CH8_8.8 ± 0.2 3 3.98E−06 0.38 16.2  
10 CH10_19.4 ± 0.2 2 4.48E−04 0.44 9.5  
  CH11_4.0 ± 0.2 2 6.44E−04 0.17 12.58 HCT
11 CH11_18.8 ± 0.2 8 9.69E−05 0.38 12.6 LOC_Os11g47390.1 putative laccase 14
  1. aMinimum allele frequency
  2. bPhenotypic variance explained (PVE) by significant SNP