Anchoring of  COS clones to mapped AFLP markers

Pool preparation A total of 28,800 individualized COS clones (approximately 0.8 GE) for oil palm and coconut, respectively, were assembled into 30 8-dimensional pools using the TECAN®GenesisRSP150 and BIOMEK®FX robots (Figure 1). The pooling strategy resulted in the unique presence of each clone in each dimension. DNAs from the 30 pools were prepared according to the QIAGEN-Tip100 Midi Prep protocol and processed for AFLP analysis

 
 
Figure: Identification of positive COS
 

 

Table:  Associations between mapped AFLP marker of the population EAT0707 x PRD and COS clones of a library

 

 

 

 

 

 

 

 

 

MN

PC

NPF

NAF

P/F no.

P/F

LG

Loc

COS

 

 

 

 

 

 

 

 

 

#115

E42xM38

9

1

#366

P115/1

3

L-1/3

#49/8/6

#118

E42xM41

7

1

#388

P118/4

2

G2

#70/9/12

#143

E44xM41

8

0

 

 

 

 

 

#148

E44xM45

9

0

 

 

 

 

 

#155

E45xM32

9

2

#620

P155/5

9

a-184/5

#59/23/4

 

 

 

 

#623

P155/8

4

a-159/5

#56/18/10

#158

E45xM37

5

1

#643

P158/5

14

G14

#64/2/3

#159

E45xM38

16

2

#647

P159/4

4

G4

#51/21/3

 

 

 

 

#652

P159/9

16

G16

#65/3/7

#162

E45xM41

5

0

 

 

 

 

 

#163

E45xM44

10

1

#688

P163/9

6

G11

#28/20/5

#166

E46xM35

8

1

#708

P166/6

2

L13/1

#7/24/3

 

 

 

 

 

 

 

 

 

Sum

10

86

9

 

 

 

 

 

Legend:

MN = marker name; PC =: AFLP primer combination; MT = marker type; NPF = number of segregating fragments of the PC; NAF = number of associating fragments; P/F = polymorphic fragment;  LG = linkage group; Loc = location; COS = anchored COS clone (plate/column/row)

 
Table: Anchoring of COS clones to mapped AFLPs of the EATxRLT progeny
AFLP bp COS No P C R P F RF0 DE LG Name
E63M73 165pb 943 3 11 15 17 4   RLT 4 B1
200pb 23602 62 12 2 17 5  54/1 RLT 2 B2
E71M63 200pb 7660 20 23 12 45 7  14/1- 85 CF  5-2 B3
E71M64 62pb ambiguous - 4 BACs 46 2 114/9 RLT 14 B4
315pb 19114 50 19 10 46 10   EAT 2 B5
E71M65 130pb 990 3 14 14 47 4   RLT 12 B6
E71M67 71pb 9334 25 8 6 49 2  114/9 RLT 14  
E71M73 280pb 2836 8 10 4 54 4  a22/1 EAT 12 B8
E71M76 55pb 23072 61 2 16 57 1   EAT 16 B9
260pb 12160 32 16 16 57 6   RLT 12 B10
375pb 2926 8 15 14 57 7   RLT 5 B11
E71M77 210pb 7902 21 14 14 58 7   RLT 2 B12
E72M63 265pb ambiguous - 4 BACs 60 12   EAT 1 B13
E72M64 88pb 16493 43 23 13 61 1   EAT 6 B14

 
Table: Anchoring of COS clones to non polymorphic AFLPs of the EATxRLT progeny