Table 2 A. niger genetic and physical map

From: Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88

   

Mapped genes linking chromosomes to contigs

 

Orientation evidence

   

Chromosome

Supercontig

By CHEF hybridization

By parasexual analysis

Orientation

Synteny expression

Mapped genes

Supercontig size

Total size

Estimated chromosome size

I

L

14

eglA, argB, rhgB, pelA, pepA, aguA

argB, pepA

← c

s, e

nid 1

1.7

3.3

3.5

 

R

9

faeA, abnA, rgaeA, pgaD, bphA, pepD

bphA, pepD

c ←

s, e

nid 1

1.6

  

II

L

13

alcB

 

← c

s, e

 

0.9

4.5

5.0

 

R

1

abfA, pepB, xyrA, kexB, xlnD, pgaI, cbhB, pgaE

cpcA, pepB, goxC

c →

s, e

nid 7

3.6

  

III

L

12

rhgA, pyrA, axeA, pgaX, glkA, areA, faeB

pyrA, areA

← c

s, e

nig 1

2.6

4.5

4.1

 

R

15

abfB, pgaII, xlnR

xlnR

c →

s, e

 

1.9

  

IV

L

7

xkiA,pepC, pepF, eglB, rodA, cbhA

xkiA

→ c

s, e

 

2.3

6.0

6.6

 

R

2

pgaB, mpdA, pepE, pacC, aglB, hxkA

creA, pkaC, mpdA, pepE, pacC

c ←

s

nid 6

3.6

  
 

R

19

pelD

 

c ←←

e

 

0.1

  

V

L

10

plyA

prtF

→ → c

e

 

0.3

3.0

3.5

 

L

17

gatA

 

→ c

s

nid 3

0.6

  
 

R

16

gpdA, pgaA

pkaR

c ←

s, e

nid 1

2.1

  

VI

L

4

 

glcA, acuA

← c

t, s, e

nid 3

2.5

4.1

5.2

 

R

3

pelB, axhA, rdna, pmeA, glaA

 

c ←

s, e

nid 2

1.6

  

VII

L

5

pgaC

 

← c

s, e

 

0.6

3.3

4.1

 

R

11

pelC, bipA, nicB

nicB

c ←

s, e

nig 1

2.7

  

VIII

L

18

nirA, bglA

nirA

→ c

s, e

nig 1

1.5

5.1

5.0

 

R

8

cprA

trpC, acuB, niaD

c →

s

nig 1

2.9

  
 

R

6

aglA

 

c → →

e

 

0.7

  
  1. The eight linkage groups were numbered in the order of which new markers were characterized and were later shown to corrrespond to chromosomes I to VIII15. The chromosome numbers do not reflect their size. The proposed position of the supercontigs on the left arm (L) or right arm (R) of the chromosomes (I-VIII) is indicated. The arrows indicate the orientation of the supercontigs relative to the centromere (c). Orientation evidence is based on telomeric sequences (t), synteny with A. nidulans near centromere (s), expression data showing telomeric positioning effect (e) and genetically mapped and identified A. niger genes (nig). The nig value indicates the number of mapped A. niger genes. The nid value is the number of orthologous A. nidulans genes corresponding to A. niger markers that confirm the proposed orientation. Total size refers to the summed supercontig sizes whereas the chromosome size is based on previous predictions15. All sizes are in Mbp.
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