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References for Deep Time RCN (Molecular Clock Analyses)

1. Baldwin, B. G. and M. J. Sanderson. 1998. Age and rate of diversification of the Hawaiian silversword alliance (Compositae). Proceedings of the National Academy of Sciences, USA 95:9402--9406.
2. Bremer, K. 2000. Early Cretaceous lineages of monocot flowering plants. Proceedings of the National Academy of Sciences, USA. 97: 4707-4711.
3. Conti, E., T. Eriksson, T. Schonenberger, K. Sytsma and D. Baum. 2002. Early Tertary out-of-India dispersal of Crypteroniaceae: evidence from phylogeny and molecular dating. Evolution 56:1931--1942.
4. Gaut, B. S. 1998. Molecular clocks and nucleotide substitution rates in higher plants. In: Evolutionary Biology (M. K. Hecht, ed.), volume 30, pp. 93--120. Plenum Press, New York.
5. Gaut, B. S., B. R. Morton , B. C. McCaig and M. T. Clegg. 1996. Substitution rate comparisons between grasses and palms: synonymous rate differences at the nuclear gene \textit{Adh} parallel rate differences at the plastid gene rbcL. Proceedings of the National Academy of Sciences, USA 93:10274--10279.
6. Goldblatt, P., Savolainen, V., Porteous, O., Porteous, O., Sostaric, I., Powell, M., Reeves, G., Manning, J. C., Barraclough, T. G., and Chase, M. W. 2002. Radiation in the Cape flora and the phylogeny of peacock irises Moraea (Iridaceae) based on four plastid DNA regions. Molecular Phylogenetics and Evolution 25(2): 341-360.
7. Hillis, D. M., B. K. Mable and C. Moritz. 1996. Applications of molecular systematics: the state of the field and a look to the future. In: Molecular systematics (D. M. Hillis, C. Morritz and B. K. Mable, eds.), pp. 515--543. Sinauer, Sunderland, Massachusetts, USA, 2nd edition.
8. Korber, B., M. Muldoon, J. Theiler, F. Gao, R. Gupta, A. Lapedes, B. H. Hahn, S. Wolinsky, and T. Bhattacharya. 2000. Timing the ancestor of the HIV-1 pandemic strains. Science (Washington D C) 288:1789-1796.
9. Sanderson, M. J. and J. A. Doyle. 2001. Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data. American Journal of Botany 88: 1499-1516.
10. Soltis, P. S., D. E. Soltis, V. Savolainen, P. Crane and T. G. Barraclough. 2002. Rate heterogeneity among lineages of tracheophytes: integration of molecular and fossil data and evidence for molecular living fossils. Proceedings of the National Academy of Sciences, USA 99:4430--4435.
11. Sorhannus, U., and C. Van Bell. 1999. Testing for equality of molecular evolutionary rates: A comparison between a relative-rate test and a likelihood ratio test. Molecular Biology and Evolution 16:849-855.
12. Thorne, J. L., H. Kishino and I. S. Painter. 1998. Estimating the rate of evolution of the rate of molecular evolution. Molecular Biology and Evolution 15:1647--1657.
13. Wikstrom, N., V. Savolainen and M. W. Chase. 2001. Proceedings of the Royal Society of London, B 268:2211--2220.
14. Wray, G. A., J. S. Levinton, and L. H. Shapiro. 1996. Molecular evidence for deep Precambrian divergences among metazoan phyla. Science (Washington D C) 274:568-573.
15. Yoder and Yang, 2000 Estimation of primate speciation dates using local molecular clocks. Molecular Biology and Evolution 17: 1081-1090.

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