Bayesian phylogenetic tree of Macrostomum lignano NRs.

• Main Authors: Wenjie Wu (81279), Philip T. LoVerde (7548587)
• Format: Still Image
• Language: unknown
• Published: 2021
• Subjects: Biochemistry; Medicine; Cell Biology; Genetics; Evolutionary Biology; Ecology; Infectious Diseases; Environmental Sciences not elsewhere classified; Biological Sciences not elsewhere classified; free-living intertidal zone flatworm; novel zinc finger motif; Platyhelminth NRs; flatworm genome data; NR subfamily 3; CHC 2 motif; Platyhelminth HR 96b; DBD; DNA binding domain; C 4-type zinc finger motifs; NR gene duplication; Crassostrea gigas
• Online Access: https://doi.org/10.1371/journal.pone.0250750.s001

The Bayesian tree was constructed with the deduced amino sequences of the DNA binding domain (DBD) with a mix amino acid replacement model + invgamma rates. The PPs values are shown above each branch, branches under the PPs 0.5 are shown as polytomies. The same data set is also tested by ML method using PHYML (v2.4.4) under LG+G+I substitution model (Equilibrium frequencies: Model, Proportion of invariable sites: Estimated (0.158), Number of substitution rate categories: 4, Gamma shape parameter: Estimated (0.956). Support values for the tree are obtained by bootstrapping a 1,000 replicates and bootstrap values above 500 and are indicated below each branch (or after MrBAYES BPPs separated by Slash). Star indicates the node obtained by Bayesian inference which is different from that obtained by ML method. Bg: Biomphalaria glabrata , Cg: Crassostrea gigas , d: Drosophila melanogaster , h: Homo sapiens , Lg: Lottia gigantean , Ml: Macrostomum lignano , Px: Protopolystoma xenopodis , Sm: Schistosoma mansoni . Red highlighted NRs show M . lignano NRs. (TIF)