Supplemental Table S2
|
H1/H2/H3
|
|
Warren et al. 2008
|
3 / 0
|
Theria monophyly / paraphyly
|
Kriegs et al. 2006
|
4 / 0
|
Placentalia monophyly / paraphyly
|
this study
|
5 / 9 / 8
|
Exafroplacentalia/Epitheria/Atlantogenata
|
Kriegs et al. 2006
|
0 / 2 / 0
|
Exafroplacentalia/Epitheria/Atlantogenata
|
Murphy et al. 2007
|
0 / 0 / 2
|
Exafroplacentalia/Epitheria/Atlantogenata
|
Krull et al. 2007
|
5 / 0
|
Xenarthra monophyly / paraphyly
|
Nishihara et al. 2005
Nishihara et al. 2006
|
7 / 0
|
Afrotheria monophyly / paraphyly
|
Kriegs et al. 2006
Nishihara et al. 2006
|
21 / 0
|
Boreotheria monophyly / paraphyly
|
Kriegs et al. 2006
Nishihara et al. 2006
|
13 / 0
|
Laurasiatheria monopyhly / paraphyly
|
Kriegs et al. 2006
Nishihara et al. 2006
|
16 / 0
|
Supraprimates monophyly / paraphyly
(Euarchontoglires)
|
Nishihara et al. 2006
|
4 / 1
|
Pegasoferae monophyly / paraphyly
|
Kriegs et al. 2007
|
5 / 0
|
Euarchonta monophyly / paraphyly
|
Nishihara et al. 2006
Kriegs et al. 2007
|
11 / 0
|
Glires monophyly / paraphyly
|
Martignetti and Brosius 1993
Farwick et al. 2006
|
2 / 0
|
Rodentia monophyly / paraphyly
|
Schmitz et al. 2002
|
4 / 0
|
Primate monophyly / paraphyly
|
Other supportive/conflicting patterns of diagnostic retroposon insertions in higher level-mammalian clades. Alternative hypotheses (H1-3). Gray backgrounds denote conflicting splits.
Literature
Farwick, A., Jordan, U., Fuellen, G., Huchon, D., Catzeflis, F., Brosius, J., and Schmitz, J. 2006. Automated scanning for phylogenetically informative transposed elements in rodents. Syst. Biol. 55: 936-948.
Kriegs, J.O., Churakov, G., Jurka, J., Brosius, J., and Schmitz, J. 2007. Evolutionary history of 7SL RNA-derived SINEs in Supraprimates. Trends Genet. 23: 158-161.
Kriegs, J.O., Churakov, G., Kiefmann, M., Jordan, U., Brosius, J., and Schmitz, J. 2006. Retroposed elements as archives for the evolutionary history of placental mammals. PLoS Biol. 4: e91.
Martignetti, J.A. and Brosius, J. 1993. BC200 RNA: a neural RNA polymerase III product encoded by a monomeric Alu element. Proc. Natl. Acad. Sci. 90: 11563-11567.
Moeller-Krull, M., Delsuc, F., Churakov, G., Marker, C., Superina, M., Brosius, J., Douzery, E.J., and Schmitz, J. 2007. Retroposed elements and their flanking regions resolve the evolutionary history of xenarthran mammals (armadillos, anteaters, and sloths). Mol. Biol. Evol. 24: 2573-2582.
Murphy, W.J., Pringle, T.H., Crider, T.A., Springer, M.S., and Miller, W. 2007. Using genomic data to unravel the root of the placental mammal phylogeny. Genome Res. 17: 413-421.
Nishihara, H., Hasegawa, M., and Okada, N. 2006. Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions. Proc. Natl. Acad. Sci. 103: 9929-9934.
Schmitz, J. and Zischler, H. 2003. A novel family of tRNA-derived SINEs in the colugo and two new retrotransposable markers separating dermopterans from primates. Mol. Phylogenet. Evol. 28: 341-349.
Warren, W.C. Hillier, L.W. Marshall Graves, J.A. Birney, E. Ponting, C.P. Gruetzner, F. Belov, K. Miller, W. Clarke, L. Chinwalla, A.T. et al. 2008. Genome analysis of the platypus reveals unique signatures of evolution. Nature 453: 175-183.
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