Table 2 Location, frequency and P values of associated SNPs.

From: Genome-wide association study Identified multiple Genetic Loci on Chilling Resistance During Germination in Maize

SNP

Chromosome

Position

MAF

P value

RDT50

RGI

RGR

S1_258878734

1

258,878,734

0.42

 

1.84E-09

 

S1_296660959

1

296,660,959

0.45

  

2.53E-11

ss196425965

1

101,270,646

0.49

 

3.44E-17

 

S2_15690029

2

15,690,029

0.30

 

2.22E-09

 

S2_43176376

2

43,176,376

0.10

  

1.98E-11

S2_46211425

2

46,211,425

0.39

 

5.82E-15

 

S2_117871531

2

117,871,531

0.19

5.07E-13

  

S2_154533439

2

154,533,439

0.13

  

1.45E-15

S2_161121602

2

161,121,602

0.08

 

7.66E-12

 

S2_202342038

2

202,342,038

0.35

2.99E-09

  

ss196436428

2

88,979,688

0.47

2.96E-19

5.07E-10

 

S4_238122472

4

238,122,472

0.10

 

7.33E-09

 

S6_156520680

6

156,520,680

0.50

  

4.59E-11

S6_23724609

6

23,724,609

0.28

 

9.70E-14

 

S7_1956860

7

1,956,860

0.41

1.37E-09

  

S7_134104928

7

134,104,928

0.15

1.38E-12

  

S9_128655946

9

128,655,946

0.35

  

7.86E-16

  1. The location is indicated by chromosome and base pair position. The frequency is indicated by the Minor Allele Frequency (MAF). The P values less than Bonferroni threshold (2.2E-8) corresponding to 5% type I error are displayed as scientific notations.
  2. MAF: Minor Allele Frequency.
  3. RGR: Relative germination rate (GR21_C/GR_N).
  4. RDT50: Relative days to 50% root germination (DT50_C/DT50_N).
  5. RGI: Relative germination index (GI_C/GI_N).
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