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Table 1 Mitochondrial gene data sets and HGTs postulated by Bergthorsson et al. and those computed by the MP analysis (NEPAL). 'donor' denotes the group from which the gene was transferred (in all cases, the recipient is Amborella).

From: Bootstrap-based Support of HGT Inferred by Maximum Parsimony

  Bergthorsson et al .[21] MP analysis
Gene #HGTs donor SH b1 b2 b3 b4 #HGTs F?
cox2 3 M <0.001 100 38 - - 1 Y
   E NS       Y
   E NS       
nad2 2 M <0.001 100 62 - - 1 Y
   E NS       Y
nad4(exons) 1 M <0.001 99 98 44 - 2 Y
nad4(ex4) 1 E NS 58   - - 0 Y
nad5 2 M <0.001 100 95 84 35 3 Y
   A 0.025       Y
nad6 1 B <0.001 100 26 - - 1 Y
nad7 2 M <0.001 99 64 - - 1 Y
   E NS       Y
atp1 1 E 0.001 98 33 - - 1 Y
atp8 1 E 0.008 75 38 - - 1 Y
ccmB 1 E NS 39 - - - 0 Y
ccmC 1 E 0.03 68 - - - 0 Y
ccmFN1 1 E 0.004 80 86 37 - 2 Y
cox3 1 A NS 69 - - - 0 N
nad1 1 E <0.001 100 88 25 - 2 Y
rpl16 1 E NS 46   - - 0 Y
rps19 1 E 0.003 100 61 - - 1 Y
sdh4 1 E NS 35   - - 0 Y
nad2intron 1 M - 66   - - 0 Y
nad5intron 1 M - 97 41 - - 1 Y
nad7intron 1 M - 100 67 - - 1 Y
  1. 'SH' denotes support of the HGT events as computed by the Shimodaira-Hasegawa (SH) test and reported by Bergthorsson et al. (values lower than 0.05 indicate high support, and NS indicates support is not significant). The 'b1', 'b2', 'b3', and 'b4' columns correspond to the support values from Formula 3 for adding the first, second, third, and fourth HGT edges inferred by the MP analysis. Since adding HGT edges stops once a weakly supported edge is encountered, a '-' entry under these columns indicates that adding HGT edges was stopped before. B = Bryophyte, M = Moss, E = Eudicot, and A = Angiosperm.