Table 4.

Support for selected phylogenetic scenarios. Comparison of our multiple analysis results (Fig. 3; Additional files 2, 3; BS under ML and MP) with eight previous manual-alignment based phylogenetic reconstructions in terms of the statistical support for relationships that appear to be consistently resolved in the fossil record of planktonic foraminifera. Values of support for each node are given where the respective study have identified the node as the dominant signal; “no” indicates analyses where an alternative topology has been preferred and “N/A” indicates analyses where some of the constituent species of the clade above the node have not been included.

	Microperforate clade	Macroperforate clade	G. truncatulinoides—G. hirsutaclade	Neogloboquadrina—Pulleniatinaclade	P. obliquiloculata—N. dutertreiclade	N. pachyderma—N. incomptaclade	Spinose clade	G. bulloides—G. falconensisclade	G. ruber—G. conglobatusclade	O. universa—G. sacculiferclade	Globigerinoides—O. universaclade
Darling et al2	N/A	No	N/A	N/A	N/A	N/A	(No)*	N/A	99	82	87
De Vargas et al3	N/A	46/41/73	N/A	N/A	N/A	N/A	No/58/51	N/A	91/100/100	No	No
De Vargas and Pawlowski5	N/A	N/A	47	N/A	N/A	N/A	(81)*	N/A	100	<50	No
Darling et al7	N/A	No	N/A	N/A	N/A	N/A	(57)*	N/A	100	47	No
Darling et al9	N/A	(76)‡	N/A	N/A	N/A	Unresolved	(86)*	N/A	99	<50	Unresolved
Stewart et al11	Unresolved	(69)§	N/A	N/A	N/A	N/A	(88)*	No	98	<50	No
Darling et al54	Unresolved	<70	N/A	N/A	78 (?)	Unresolved	<70	N/A	100	<70	No
Ujiié et al69	1.00/100	0.88/80	No	No	Unresolved	N/A	0.87/52	N/A	1.0/100	0.83/80	Unresolved
Multiple analysis
BSML	100–59	82–30 (10†)	78–2	39–5	91–0	30–5	100–37	94–56	100–99	100–83 (0†)	100–32
BSMP	100–52	20–0	34–0	7–0	99–0	14–0	61–22 (0†)	100–56	100	99–64 (0†)	66–12

^*These studies did not include the phylogenetically challenging taxon Hastigerina pelagica.

^†Based on the KALIGN-generated alignment (see text).

^‡No Globorotalia species included.

^§Only two close relatives included.