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Table 2 Haplotypes and polymorphic sites among isolates of Erysiphe necator based on partial sequences of three gene regions.

From: Phylogeography and population structure of the grape powdery mildew fungus, Erysiphe necator, from diverse Vitisspecies

Haplotype1

N

Polymorphic Sites2

Region (N)3

Host Vitisspp. (N)4

  

ITS/IGS

TUB2

EF1- α

  

1 (aaa)

16

TGGTGG/CGGTC

TGCCTTTATCCC

CTCGACCATTTCGC

SE (8), NE (8)

vin (8), hyb (3), aes (2), rip (3)

2 (aab)

4

....../.....

............

........C.....

NE (4)

vin (2), hyb (1), rip (1)

3 (aac)

1

....../.....

............

...........T..

NE (1)

hyb (1)

4 (aad)

1

....../.....

............

.........C....

SE (1)

aes (1)

5 (aae)

3

....../.....

............

.....A........

NE (3)

hyb (2), lab (1)

6 (aaf)

4

....../.....

............

.....A.G......

NE (4)

hyb (2), lab (1), rip (1)

7 (aag)

1

....../.....

............

TC............

NE (1)

rip (1)

8 (aah)

7

....../.....

............

TC...A......A.

SE (2), NE (5)

hyb (3), lab (1), aes (1), rip (2)

9 (aai)

6

....../.....

............

.............T

SE (1), NE (5)

vin (1), lab (1), aes (3), rip (1)

10 (aaj)

6

....../.....

............

......T......T

NE (6)

hyb (5), lab (1)

11 (aak)

5

....../.....

............

...T.........T

SE (3), C (1), NE (1)

vin (2), hyb (2), rip (1)

12 (aal)

2

....../.....

............

..........C..T

SE (1), NE (1)

vin (2)

13 (aam)

1

....../.....

............

....G.....C..T

NE (1)

vin (1)

14 (aba)

3

....../.....

..T.........

..............

SE (3)

vin (1), lab (1), aes (1)

15 (abb)

1

....../.....

..T.........

........C.....

SE (1)

lab (1)

16 (abl)

1

....../.....

..T.........

..........C..T

C (1)

hyb (1)

17 (abn)

1

....../.....

..T.........

............A.

C (1)

rip (1)

18 (ach)

1

....../.....

.C..........

TC...A......A.

C (1)

vin (1)

19 (acl)

2

....../.....

.C..........

..........C..T

C (2)

vin (1), hyb (1)

20 (aco)

1

....../.....

.C..........

..A.......C..T

C (1)

hyb (1)

21 (adb)

1

....../.....

C...........

........C.....

NE (1)

vin (1)

22 (aeh)

2

....../.....

.........T..

TC...A......A.

NE (2)

hyb (2)

23 (afn)

2

....../.....

.......T....

............A.

C (2)

vin (2)

24 (agk)

1

....../.....

..........T.

...T.........T

SE (1)

vin (1)

25 (baa)

3

....../....T

............

..............

SE (1), NE (2)

lab (3)

26 (bab)

2

....../....T

............

........C.....

NE (2)

vin (1), lab (1)

27 (bai)

1

....../....T

............

.............T

NE (1)

lab (1)

28 (bal)

1

....../....T

............

..........C..T

NE (1)

vin (1)

29 (bba)

1

....../....T

..T.........

..............

NE (1)

hyb (1)

30 (bbl)

1

....../....T

..T.........

..........C..T

NE (1)

hyb (1)

31 (bha)

2

....../....T

..T..A......

..............

NE (2)

lab (2)

32 (bia)

1

....../....T

......C.....

..............

NE (1)

lab (1)

33 (cba)

23

....../...CT

..T.........

..............

SE (8), EU (13), AU (2)

vin (18), hyb (1), aes (2), rip (2)

34 (dba)

1

....../..CCT

..T.........

..............

SE (1)

rot (1)

35 (dja)

4

....../..CCT

..TG........

..............

SE (4)

rot (4)

36 (eba)

1

....C./.....

..T.........

..............

NE (1)

vin (1)

37 (fae)

1

.T..../.....

............

.....A........

SE (1)

hyb (1)

38 (gac)

1

.....A/.....

............

...........T..

C (1)

hyb (1)

39 (hac)

1

..A.../.....

............

...........T..

SE (1)

aes (1)

40 (ika)

1

...A../....T

..T.C.......

..............

NE (1)

aes (1)

41 (jai)

18

C...../T....

............

.............T

W (12), EU (6)

vin (18)

42 (jak)

1

C...../T....

............

...T.........T

EU (1)

vin (1)

43 (jli)

3

C...../T....

...........T

.............T

W (1), EU (2)

vin (3)

44 (jll)

2

C...../T....

...........T

..........C..T

EU (2)

vin (2)

45 (kmi)

4

C...../TA...

........C...

.............T

AU (4)

vin (4)

  1. 1Numbers refer to the multilocus haplotypes; letters in parentheses refer to the haplotypes for ITS/IGS (the internal transcribed spacer of rDNA/the intergenic spacer of rDNA), TUB2 (beta-tubulin), and EF1-α (translation elongation factor 1-α), respectively. Group A is represented by haplotype 33 and group B is represented by haplotypes 41-45.
  2. 2Only segregating sites are listed, which correspond to the following nucleotide positions in the referenced GenBank accessions: ITS (GQ255473; total length 591 nucleotides): 48, 84, 86, 170, 420, 462; IGS (GQ255476; 347 nt): 108, 206, 211, 216, 223; TUB2 (GQ255475; 442 nt): 24, 37, 79, 82, 128, 183, 207, 288, 316, 344, 356, 368; EF1-α (GQ255471; 423 nt): 2, 9, 25, 33, 102, 189, 210, 227, 228, 231, 336, 381, 384, 420.
  3. 3regions are: SE = southeast US, C = central US, NE = northeast US, W = western US, EU = Europe, AU = Australia. N = the number of isolates from each region with the designated haplotype.
  4. 4hosts are: vin = V. vinifera, hyb = vinifera hybrids, lab = V. labrusca and labrusca hybrids, aes = V. aestivalis, rip = V. riparia, rot = V. rotundifolia. N = the number of isolates from each host with the designated haplotype.
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BMC Ecology and Evolution

ISSN: 2730-7182

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