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Table 2 Heritability, intervals, additive effect and evidences of the QTLs identified with FlexQTL software

From: Integrated QTL detection for key breeding traits in multiple peach progenies

TRAIT (sample size)a

Heritability (h2)

QTL nameb

Involved haploblocksc

Position intervald

Additive effect

Evidences (2lnBF)e

COf

NUI1g

NUI2h

FD (1163)

0.92

qFD1

1.09–1.13

9,262,115–13,801,920

6.9

positive (4.8)

 

x

 

qFD2

2.03

3,205,511–4,172,142

1.2

positive (2.6)

x

x

 

qFD4.1

4.01–4.03

1,117,074–4,056,544

3.6

positive (3.3)

x

x

 

qFD4.2

4.13–4.15

13,123,062–16,084,695

12.7

decisive (>10)

 

x

 

qFD6.1

6.03

3,163,789–4,096,358

2.1

strong (5.2)

x

x

 

qFD6.2

6.25

25,235,588–26,118,990

4.9

decisive (>10)

 

x

 

qFD7

7.17–7.19

17,205,368–20,002,222

2.7

positive (3.8)

x

x

 

qFD8.1

8.03

3,177,246–3,925,327

1.4

positive (2.8)

 

x

 

qFD8.2

8.17–8.19

17,207,719–20,084,244

4.9

strong (5.5)

 

x

 

MD (1166)

0.94

qMD1

1.39–1.41

40,030,681–41,980,791

16.8

positive (4.2)

 

x

 

qMD2

2.23

23,368,508–24,174,472

4.9

decisive (>10)

 

x

 

qMD3

3.25–3.27

25,062,869–27,310,140

20.1

strong (5.4)

 

x

 

qMD4

4.11–4.13

11,208,348–14,108,774

15.6

decisive (>10)

x

x

 

qMD5

5.01

1,376,476–2,240,658

5.4

strong (9.6)

x

x

 

qMD6.1

6.03–6.05

3,163,789–6,049,306

10.4

decisive (>10)

x

x

 

qMD6.2

6.17

17,252,031–18,109,410

5.7

strong (6.1)

x

x

 

FDP (966)

0.92

qFDP1

1.41

41,413,143–41,980,791

9.8

strong (5.4)

 

x

 

qFDP2

2.23

23,368,508–24,174,472

5.3

decisive (>10)

 

x

 

qFDP3

3.27

27,096,340–27,310,140

10.6

strong (5.7)

 

x

 

qFDP4

4.11

11,208,348–12,107,192

10.0

decisive (>10)

x

x

 

qFDP5

5.01

1,376,476–2,240,658

4.3

positive (2.4)

x

x

 

qFDP6.1

6.03–6.05

3,163,789–6,049,306

11.7

decisive (>10)

x

x

 

qFDP6.2

6.17

17,252,031–18,109,410

5.1

positive (4.7)

x

x

 

qFDP6.3

6.23–6.25

23,319,780–26,118,990

8.0

strong (6.4)

 

x

 

PSC (570)

0.71

qPSC4

4.11–4.13

11,208,348–14,108,774

23.6

positive (3.2)

x

x

 

qPSC5

5.17

17,920,002–18,236,498

13.0

strong (6.2)

x

x

x

qPSC6.1

6.03–6.05

3,163,789–4,096,358

30.8

positive (4.7)

x

x

x

qPSC6.2

6.13

13,165,672–13,743,179

9.2

positive (2.8)

  

x

qPSC6.3

6.17–6.19

17,252,031–20,094,864

26.0

strong (5.8)

 

x

x

TA (818)

0.90

qTA1

1.07

7,374,062–7,949,419

3.5

decisive (>10)

 

x

x

qTA2

2.23

23,368,508–24,174,472

1.3

strong (5.1)

 

x

x

qTA5

5.01

1,376,476–2,240,658

7.7

decisive (>10)

x

x

x

qTA6.1

6.07

7,550,351–8,127,200

1.4

positive (3.2)

 

x

 

qTA6.2

6.23–6.25

23,319,780–26,118,990

3.4

strong (5.1)

 

x

x

SSC (855)

0.63

qSSC2

2.19

19,233,501–20,101,839

0.7

positive (3.5)

 

x

x

qSSC4

4.11

11,208,348–12,107,192

0.9

strong (9.5)

x

x

x

qSSC5.1

5.01–5.05

1,376,476–6,071,714

3.2

strong (5.2)

x

x

x

qSSC5.2

5.15–5.17

15,249,345–18,236,498

1.5

strong (5.5)

x

x

x

qSSC6.1

6.03–6.05

3,163,789–6,049,306

1.9

strong (6.0)

x

x

x

qSSC6.2

6.29

29,231,387–30,104,758

1.2

positive (3.2)

 

x

x

FW (777)

0.78

qFW1

1.27

27,194,373–28,053,064

15.1

positive (4.6)

 

x

x

qFW2

2.01–2.03

1,197,660–4,172,142

29.7

positive (4.7)

x

x

x

qFW5.1

5.01–5.03

1,376,476–4,224,621

38.7

decisive (>10)

x

x

x

qFW5.2

5.11–5.13

11,258,684–14,161,849

36.0

positive (3.9)

 

x

x

qFW5.3

5.15–5.17

15,249,345–18,236,498

73.8

strong (7.3)

x

x

x

qFW6.1

6.03–6.05

3,163,789–6,049,306

44.2

strong (5.7)

x

x

x

qFW6.2

6.27–6.29

27,164,548–30,104,758

78.0

strong (5.3)

x

x

x

  1. aFD = flowering time; MD = onset of ripening (MD); FDP = fruit development period, PSC = percentage of red overcolor on the fruit skin, TA = titratable acidity of the fruit flesh, SSC = soluble solid content of the fruit flesh, FW = fruit weight
  2. bQTLs were named as follows: q + trait name + chromosome + ordinal position of the QTL in the chromosome (when more than one) (i.e. “qFD4.1” refers to the first QTL for FD in chromosome 4)
  3. cHaploblocks are designated by the chromosome number followed by the physical position (in Mb, according to Peach v2.0) of the first SNP of the block (i.e. “1.09” indicates that the first SNP of the haplotype involved in the QTL is in the 9 Mb region of chromosome 1)
  4. dThe interval position corresponds to the peak areas over the posterior bin-wise threshold probabilities
  5. e Evidences, measured as the 2lnBF, calculated on the original (raw) phenotypic data
  6. fQTLs identified in the analysis of commercial progenies only
  7. gPhenology and fruit quality QTLs using the “year of evaluation” and the “location” as nuisance variable (NUI1)
  8. hFruit quality QTLs using maturity date (MD) as nuisance variable (NUI2)
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BMC Genomics

ISSN: 1471-2164

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