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Table 1 Summary of haplotypes significantly associated with frost tolerance in at least one platform, their haplotype effects, and percent genetic variation explained by the haplotypes

From: Association analysis of frost tolerance in rye using candidate genes and phenotypic data from controlled, semi-controlled, and field phenotyping platforms

Candidate gene

Name of haplotypea

Controlled (recovery score 0-5)b

Semi-controlled (% plants with undamaged leaves)

Field (% survival)

  

P-valuec

β Hap

% genetic variation explained

P-value

β Hap

% genetic variation explained

P-value

β Hap

% genetic variation explained

ScCbf2

Overalld

< 0.001

-

25.7

0.21

-

16.3

0.40

-

5.0

 

2

0.04

-0.11

-

0.51

-0.51

-

0.73

-0.51

-

 

3

< 0.001

0.49

-

0.19

1.36

-

0.12

3.32

-

 

4

< 0.001

-0.31

-

0.12

-1.43

-

0.74

0.57

-

ScCbf15

Overall

< 0.01

-

0.6

0.09

-

17.6

0.09

-

4.4

 

1

< 0.01

-0.22

-

0.04

-1.69

-

0.06

-3.32

-

 

2

< 0.01

-0.21

-

0.13

-0.92

-

0.04

-2.59

-

ScIce2

Overall

0.04

-

4.8

0.02

-

13.3

0.13

-

8.1

 

1

< 0.01

0.29

-

< 0.01

2.74

-

0.02

3.47

-

  1. a Haplotypes with minor allele frequency (MAF) > 5%
  2. b 0: completely died. 1: little sign of life. 2: intensive damage. 3: moderate damage. 4: small damage. 5: no damage
  3. c P-values < 0.05 are printed in bold
  4. d All haplotypes (MAF > 5%) within a candidate gene