Table 2

Distribution of orthogroups with phyletic patterns supporting early eukaryotic duplication

Dataset

Method

Support

(RO)(RO)

(RO)(R)

(RO)(O)

Othera

Total


Analysis I

NJ-BSb

≥ 50%

73 (36.7%)

56 (28.1%)

59 (29.6%)

11 (5.5%)

199

≥ 70%

52 (39.7%)

31 (23.7%)

34 (26.0%)

14 (10.7%)

131

ML-BS

≥ 50%

71 (39.2%)

55 (30.4%)

46 (25.4%)

9 (5.0%)

181

≥ 70%

46 (41.4%)

29 (26.1%)

21 (18.9%)

15 (13.5%)

111

ML-aLRTc

≥ 50%

102 (41.1%)

75 (30.2%)

64 (25.8%)

7 (2.8%)

248

≥ 70%

95 (40.9%)

63 (27.2%)

62 (26.7%)

12 (5.2%)

232

Analysis III

NJ-BS

≥ 50%

90 (30.9%)

72 (24.7%)

94 (32.3%)

35 (12.0%)

291

≥ 70%

40 (26.3%)

41 (27.0%)

41 (27.0%)

30 (19.7%)

152

ML-BS

≥ 50%

92 (33.9%)

80 (29.5%)

62 (22.9%)

37 (13.7%)

271

≥ 70%

39 (30.2%)

33 (25.6%)

22 (17.1%)

35 (27.1%)

129

ML-aLRT

≥ 50%

299 (48.3%)

156 (25.2%)

156 (25.2%)

8 (1.3%)

619

≥ 70%

268 (46.4%)

136 (23.6%)

150 (26.0%)

23 (4.0%)

577


aAll the orthogroups for which the pattern of retention of duplicates cannot be explicitly determined are assigned to the 'Other' category. bBS, bootstrap test. caLRT, approximate likelihood-ratio test. R, Archaeplastida; O, Opisthokonta; (RO)(RO), both duplicates were retained in plants and animals/fungi; (RO)(O), one of the duplicates was lost in plants; (RO)(R), one of the duplicates was lost in animals/fungi.

Zhou et al. Genome Biology 2010 11:R38   doi:10.1186/gb-2010-11-4-r38

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