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Table 2 Four SNPs associated with electrical conductivity (EC), germination rate (GR), shoot length (ShL), and root length (RL) on MLM and mrMLM models

From: Genome-wide association study uncovers major genetic loci associated with seed flooding tolerance in soybean

Traits a

SNP IDb

Chrc

Position (bp)

Allele

MLMd

mrMLMf

−log10 (p)

R2 (%)e

LODg

R2 (%)e

EC

Gm_08_11971416

8

11,971,416

C/T

5.16–5.25

8.80–8.99

7.99–9.25

7.78–9.20

Gm_08_46239716

8

46,239,716

A/G

3.98–4.08

6.48–6.66

3.78–5.53

4.88–7.26

GR

Gm_08_11971416

8

11,971,416

C/T

4.82–5.08

8.29–8.84

4.93–5.84

5.19–6.89

Gm_08_46239716

8

46,239,716

A/G

4.88–5.79

8.26–10.12

7.14–7.24

9.54–12.13

ShL

Gm_05_1000479

5

1,000,479

A/C

3.73–4.31

6.08–6.87

7.38

9.92

RL

Gm_01_53535790

1

53,535,790

A/G

3.78–3.88

6.09–6.28

3.69

6.07

  1. aEC Electrical conductivity (μS·cm−1/g−1), GR Germination rate, ShL Shoot length (cm), RL Root length (cm)
  2. bSingle nucleotide polymorphism
  3. cChromosome
  4. dMixed Linear Model
  5. ePhenotypic variation explained (%)
  6. fmulti-locus random-SNP-effect mixed linear model (mrMLM)
  7. glogarithm of odds