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Table 6 Selected quantitative trait loci (QTL) regions associated with bud set in Populus nigra.

From: Phenotypic plasticity, QTL mapping and genomic characterization of bud set in black poplar

Parent - LG

Traits

Flanking SSRs

Overlap QTL interval length

Position on P. trichocarpav2 (kbp)

Genes and SNPs within QTL interval

722 CGs from Ruttink et al[31]

CGs from other sources

   

cM

Kbp

Start

End

Genes

Poli SNPs

intrasp. SNPs*

all LG

within QTL

all LG

within QTL

Poli - Ia

date2.5

PMGC_2550-PMGC_2499

22.12

1663.095

4828.200

6491.295

217

2967

14482

81

2

4

0

 

date1.5

            
 

subproc2

            

Poli - IV

date2.5

PTR01-ORPM_221

64.2

7780.103

8083.898

15864.000

470

29159

88907

39

6

4

2

 

date1.5

            
 

date1.5

            

Poli - XIII

date2.5

PMGC_2658-WPMS_1

20.1

5524.000

6787.986

12312.018

322

17536

57215

42

5

1

0

Poli - XVII

date2.5

PMGC_2889-PMGC_325

52.8

6159.403

8295.993

14455.396

445

23391

99316

21

7

2

1

 

date1.5

            

58-861 - X

date2.5

PMGC_2163-PMGC_510

25

2839.533

3827.925

6667.458

125

11418

33742

46

2

4

0

 

date1.5

            

58-861 - XIII

subproc1

WPMS_02-GCPM_2180

120.9

10565.891

0.001

10565.891

954

30973

100689

42

29

1

1

58-861 - XVI

date2.5

WPMS_02-GCPM_2180

34.89

8956.860

0.001

8956.861

990

27957

94980

31

20

2

2

 

date1.5

            
  1. QTL intervals were projected on the physical genome sequence by anchored markers (flanking SSRs). The length of the QTL intervals in centiMorgan (cM) and in Kilobase pairs (Kbp) is given together with the number of gene models, single nucleotide polymorphisms (SNPs) for the male parent 'Poli' and SNPs between 'Poli' and three other P. nigra genotypes (71077-308, BEN3, and BDG) [30]. The table also reports the number of candidate genes (CGs) for bud development from Ruttink et al. [31] and other sources (literature and GenBank) on linkage groups (LG) containing QTL and within the QTL interval.
  2. * SNPs among four P. nigra genotypes (Poli, 71077-308, BEN3, and BDG).