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Table 2 Comparison of expected and observed numbers of GBS loci of selected hybrid Phytophthora species in clades 1, 6 and 7

From: Unravelling hybridization in Phytophthora using phylogenomics and genome size estimation

Clade

Parental species

Number of parental loci

Hybrid species

Number of hybrid loci

Observed

Uniquea

Shared

Expectedb

Observed

Shared with parental species

1a

P. cactorum

15,565

3707

11,858

P. ×serendipita

19,621

19,181

15,231

P. hedraiandra

15,914

4056

15,444

1a

P. cactorum

15,565

3827

11,738

P. cactorum ×

P. hedraiandra-related1

19,243

18,325

14,812

P. hedraiandra-related1

15,416

3678

14,639

1a

P. hedraiandra

15,914

3055

12,859

P. hedraiandra ×

P. hedraiandra-related1

18,471

18,081

15,363

P. hedraiandra-related1

15,416

2557

14,961

1a

P. cactorum

15,565

14,000

1565

P. ×pelgrandis

28,992

27,550

14,706

1

P. nicotianae

14,992

13,427

13,194

6b

P. thermophila

21,405

13,904

7501

P. thermophila ×

P. amnicola

36,190

32,562

19,368

P. amnicola

22,286

14,785

19,083

6b

P. amnicola

22,286

14,828

7458

P. amnicola ×

P. chlamydospora

35,077

32,010

17,966

P. chlamydospora

20,249

12,791

19,378

6b

P. chlamydospora

20,249

15,356

4893

P. chlamydospora ×

P. lacustris

38,305

31,337

17,760

P. lacustris

22,949

18,056

16,028

7a

P. uniformis

22,757

10,059

12,698

P. ×alni

46,703

45,128

21,957

P. ×multiformis

36,644

23,946

34,259

7b

P. niederhauseric

15770c

14,183

1587

P. niederhauseri ×

P. asparagi-related

42,486

42,192

15,770

6

P. asparagid

28,303

26,716

24,851

  1. aNumber of unique loci calculated as the average number of loci for the species minus the average number of loci shared with the other parental species
  2. bExpected loci in the hybrid calculated as the sum of the number of unique loci for each parental species and the number of loci shared between the parental species
  3. cBecause P. niederhauseri is a hybrid itself, the theoretical number of loci for non-hybrid P. niederhauseri was estimated based on the number of shared loci of the P. niederhauseri × P. asparagi-related hybrid and the hybrid P. niederhauseri isolates that have an allele similarity = 93%
  4. dP. asparagi-related is not present in our set of isolates so P. asparagi was used instead, assuming it has a similar number of loci