Resolution:
## Figure 3.
Nuclear genealogies. (A) Haplotype genealogy from Maximum likelihood analysis of RPL9, (B) RPL3 and (C) c-myc performed in the software Haploviewer. Models of nucleotide substitution used for
ML were: TN93+G (0.095) for RPL9; TVM + G (0.014) for RPL3; and, K81uf + G (0.015) for c-myc. (D) Bayesian inference of species tree based on nuclear data performed in *BEAST.
Bayesian posterior probabilities are above branches. (E) Geographic distribution of
haplotypes observed in R. marina from Left Amazon river bank (LAB) and Right Amazon river bank (RAB), and in R. schneideri. The circle area of each haplotype, coded as a number (Additional file 1), is proportional to its frequency. Haplotypes delimited by a dotted line represent
sequences clustered within R. schneideri that are present in three heterozygous R. marina individuals. Dots represent inferred unsampled or extinct haplotypes.
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