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Table 4 Physical and genetic locations of BAC clones hybridized to potato chromosome 5

From: Homologues of potato chromosome 5 show variable collinearity in the euchromatin, but dramatic absence of sequence similarity in the pericentromeric heterochromatin

Chromosomal arm (a)

BAC clone

Figure

Color

Physical location (FL) (b)

MTP

Haplotype (e)

AFLP marker (number/name)

Genetic position (bin number) (f)

5 L (EC)

RH042N03

1,2

Yellow

0.40 ± 0.06

4846

0

20179

EAAGMACC_272

4

5 L (EC)

RH201A02

1,2

Blue

1.14 ± 0.30

1070

0

  

(4)

5 L (EC)

RH081B09

1,2

Green

2.70 ± 0.42

2129

0

7241

EAACMCAG_149.7

4

5 L (EC)

RH199B23

1,2

Yellow

3.20 ± 0.66

3171

-

   

5 L (EC)

RH202I20

1,2

Red

5.00 ± 0.42

6457

0

7202

EAGGMAGA_385

1-4

5 L (EC)

RH133F12

1,2

Magenta

5.88 ± 0.35

25

0

7235

EATCMCTC_236.2

4

5 L (EC)

RH043P07

1,2

Green

7.01 ± 0.33

941

1

  

(12)

5 L (EC)

RH133I18

1,2

Blue

8.52 ± 0.37

382

0

7260

PGA/MATG_101.5

12

5 L (EC)

RH085N22

1,2

Magenta

8.66 ± 0.76

1015

1

7265

EACAMACC_361.6

16

5 L (EC)

RH052G17

1,2

Red

10.07 ± 0.85

2478

0

20145

EAACMCTT_435H

16-17

5 L (EC)

RH095I08

1,2,3

Green/Blue

12.71 ± 1.15

1015

1

7280

EAACMAGG_167

21

5 L (EC)

RH052M07

1,2

Yellow

13.46 ± 1.13

903

0

7287

CAAGMCAT_174.6

26-27

5 L (EC)

RH035K21

1,2

Blue

16.64 ± 2.34

(c)

    

5 L (EC)

RH082N16

1,2

Magenta

16.64 ± 2.34

1382

M

   

5 L (EC)

RH196F10

1,2

Red

19.51 ± 1.25

178

M

   

5 L (EC)

RH076O08

1,2

Blue

20.66 ± 1.32

799

1

20640

EAGAMACC_230

37

5 L (EC)

RH103P18

1,2

Green

21.76 ± 1.04

1841

M

   

5 L (EC)

RH078E16

1,2

Red

23.02 ± 1.27

1800

1

7296

EAGGMACA_500

37

5 L (EC)

RH085C18

1,2

Blue

25.21 ± 2.02

1114

0

  

(37)

5 L (HC)

RH167O23

1,2

Yellow

24.76 ± 0.51

3004

1

11894

EATCMCAG_17H

37

5 L (HC)

RH176P24

1,2

Magenta

25.21 ± 2.02

672

0

  

(46–47)

5 L (HC)

RH017I02

1,2

Red

25.67 ± 2.33

672

0

  

(46–47)

5 L (HC)

RH048J07

1,2

Yellow

35.34 ± 2.78

1685

1

12427

EAGGMAAG_2H

47

Centromere

 

1,2,3

Asterisk

41.67

     

5S (HC)

RH056O13

1,2

Magenta

45.11 ± 2.68

5325

1

11936

EACAMACC_270.9H

46-47

5S (HC)

RH071D16

1,2

Green

46.78 ± 2.45

3424

0

7590

EAGTMAGC_997

46

5S (HC)

RH102K09

3

Green

47.86 ± 2.38

1645

1

12129

EAGAMCCT_586.0H

46

5S (HC)

RH138C23

3

Magenta

47.93 ± 2.00

1645

1

  

(46–47)

5S (HC)

RH095M08

3

Yellow

51.94 ± 2.13

1054

0

7392

EAAGMCAT_15

45

5S (HC)

RH193O24

3

Red

52.03 ± 2.45

1054

0

  

(47)

5S (HC)

RH013O07

1,2

Red

57.28 ± 1.74

(d)

   

(46–47)

5S (EC)

RH089A21

1,2

Blue

60.68 ± 1.87

6472

1

12520

EACTMCTA_188.9H

55

5S (EC)

RH044A21

1,2

Magenta

68.57 ± 1.80

4210

0

7626

EAACMCTC_205

60

5S (EC)

RH136O01

1,2

Green

70.33 ± 1.47

6915

0

7629

EAAGMCTT_144.9

65

5S (EC)

RH028L14

1,2

Blue

71.12 ± 1.98

6915

0

   

5S (EC)

RH144F10

1,2

Yellow

72.16 ± 1.14

6915

0

7631

CATAMCCA_322.3

66-69

5S (EC)

RH060F21

1,2

Green

73.51 ± 0.84

6844

M

   

5S (EC)

RH093O07

1,2

Yellow

74.36 ± 1.14

429

0

   

5S (EC)

RH089M16

1,2

Magenta

75.42 ± 1.17

6844

1

12569

EATCMCTC_27H

78

5S (EC)

RH075N11

1,2

Red

76.70 ± 0.93

648

0

7651

EAGTMCCA_208.5

78

  1. (a) 5 L = long arm; 5S = short arm; EC = euchromatin; HC = heterochromatin.
  2. (b) Physical location (= fraction length) was calculated as (S/T)binT, where S = the distance in μm from the FISH hybridization site to the north end of Chr-5, T = the total length of Chr-5 in micrometer, binT = the total bin value (78) of Chr-5.
  3. (c) Unsequenced BAC clone aligning to DM superscaffold PGSC0003DMB000000210.
  4. (d) Unsequenced BAC clone with marker GP188 and aligning to DM superscaffold PGSC0003DMB000000328.
  5. (e) ‘-’ = haplotype undetermined; M = monomorphic region (i.e. no difference between haplotypes).
  6. (f) Bin numbers in brackets are from AFLP anchors in adjacent BAC clones in the RH physical map. Bin values for AFLP markers can deviate slightly from the true bin value due to missing scores, e.g. in practice markers mapped to the bin 45–47 region all belong to the bin 46 segment of the genetic map.
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BMC Genomics

ISSN: 1471-2164

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