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Figure 3 | BMC Evolutionary Biology

Figure 3

From: An amphioxus orthologue of the estrogen receptor that does not bind estradiol: Insights into estrogen receptor evolution

Figure 3

Phylogenetic analysis of amphiER. (A) Summary of the 26 best placements of amphiER within a phylogenetic tree comprised of 69 NR3 and 8 RXR sequences. 23/26 topologies ("ER-tree") place amphiER within the ER clade, the 3 remaining topologies ("alter-ER tree") place amphiER either at the base of (ER, NR3C) or within the NR3C family (close to an AR) or at the base of the NR3 family. The mean evolutionary rate of the sites supporting one of the 23 "ER-tree" topologies (0,9) or for the "alter-ER tree" topologies (1,2) are indicated in (B). (B) Distribution of the site relative evolutionary rates. Rates were estimated using an 8 class discretized gamma distribution. The vertical dotted lines correspond to different tentative threshold (2.5, 2, 1.5), above which sites have been discarded due to their high evolutionary rate, before reestimating the phylogeny of the consecutive alignment. (C) Estimation of the minimum of Chi2-based and SH-like supports, available in the aLRT-PHYML software, for the branches defining the monophyly of ERs as well as the position of amphiER. 4 trees were inferred using an alignment on which the fastest evolving sites were removed (no site removed, 34, 53 and 82 sites removed out of 323, with a mean evolutionary rate threshold above 2.5, 2.0 and 1.5, respectively).

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