Maximino, C. A quantitative test of the thermogenesis hypothesis of cetacean brain evolution, using phylogenetic comparative methods.
Recent work by Casanellas and Fernández-Sánchez, based on the geometry of the invariants and the combinatorics of binary trees, demonstrated that it is theoretically possible to reconstruct phylogenetic trees using a subset of the invariants called relevant invariants [ 21].
To compare our results to those previously reported for the genus Poa, we built a phylogenetic tree using a subset of the Australian CDO504 copy A and B sequences (spanning the diversity observed in each), along with other Poa CDO504 sequences obtained from GenBank (see Methods).
Using a subset of SNPs, the phylogenetic relationships of eight different accessions of Raphanus was inferred.
Following Fuertes Aguilar and Nieto Feliner [ 58 ], phylogenetic analyses were performed using a subset of the nrITS dataset (as well as the Xdh dataset) following removal from the matrix of any APS-bearing accessions belonging to the Amitostigma alliance.
Using a subset of new markers, we have performed phylogenetic analyses.
GenBank sequence data for the NSP3 coding region was limited; therefore, another phylogenetic tree for the E2 coding region was produced by using a subset of lineage I strains for which the NSP3 sequences were available.
Using a subset of 10 markers, we demonstrate the utility of the developed markers in phylogenetic and evolutionary rate analyses.
To analyze the phylogenetic relationships of different Raphanus accessions, a neighbor-joining phylogenetic tree was constructed for eight accessions that had sufficient ESTs for the analysis, using a subset of 1,800 SNPs that had information derived from all eight accessions.
Subsequent, "small-scale" analyses were performed using a subset of taxa, selected on the basis of the large-scale ML analyses and their relative completeness, to better contextualize and further investigate the phylogenetic relationships of Ericabatrachus.
It should be pointed out that Bayesian phylogenetic trees constructed using subsets of the total number of Hr sequences, also gave topologies identical to that obtained above (see Figs. s3 and s4 in Additional file 1).
