A mitogenomic phylogeny of living primates

Abstract

Primates, the mammalian order including our own species, comprise 480 species in 78 genera. Thus, they represent the third largest of the 18 orders of eutherian mammals. Although recent phylogenetic studies on primates are increasingly built on molecular datasets, most of these studies have focused on taxonomic subgroups within the order. Complete mitochondrial (mt) genomes have proven to be extremely useful in deciphering within-order relationships even up to deep nodes. Using 454 sequencing, we sequenced 32 new complete mt genomes adding 20 previously not represented genera to the phylogenetic reconstruction of the primate tree. With 13 new sequences, the number of complete mt genomes within the parvorder Platyrrhini was widely extended, resulting in a largely resolved branching pattern among New World monkey families. We added 10 new Strepsirrhini mt genomes to the 15 previously available ones, thus almost doubling the number of mt genomes within this clade. Our data allow precise date estimates of all nodes and offer new insights into primate evolution. One major result is a relatively young date for the most recent common ancestor of all living primates which was estimated to 66-69 million years ago, suggesting that the divergence of extant primates started close to the K/T-boundary. Although some relationships remain unclear, the large number of mt genomes used allowed us to reconstruct a robust primate phylogeny which is largely in agreement with previous publications. Finally, we show that mt genomes are a useful tool for resolving primate phylogenetic relationships on various taxonomic levels.

Figure 1. Phylogram showing the phylogenetic relationships among the investigated primate mt genomes as obtained from dataset mtDNA1.

Newly generated sequences are indicated in bold. Black dots on nodes indicate ML support and Bayesian posterior probabilities of 100% and 1.0, respectively. Lower values are shown at the respective branches.

Figure 2. Estimated divergence ages as obtained from dataset mtDNA1 along with their 95% credibility intervals (blue bars).

Newly generated sequences are indicated in bold. A geological time scale is given below the tree. For detailed information on estimated divergence ages see Table S3.