This bibliography gathers publications over many years from a variety of researchers exploring topics of agency, directionality, and function (among others) with a special emphasis on CASP members. It began with work from teams within the initial Agency, Directionality and Function project and continues to be populated with papers and articles from diverse researchers looking to further develop and expand ways of working interdisciplinarily on the complex theme of teleology.
Included in the bibliography are entries for publications and books that many scholars involved in the Agency, Directionality and Function project recommended as foundational texts in their field of study. We welcome suggestions for additions to the bibliography from CASP members.
History of Life and the Fossil Record
Hou, J., Hughes, N. C., & Hopkins, M. J. (2023). Gill grooming in middle Cambrian and Late Ordovician trilobites. Geological Magazine, 160(5), 905–910.
Hunt, G. (2007). “The Relative Importance of Directional Change, Random Walks, and Stasis in the Evolution of Fossil Lineages.” Proceedings of the National Academy of Sciences, United States of America 104(47):18404–18408.
Hunt, G. and D.L. Rabosky (2014). "Phenotypic Evolution in Fossil Species: Pattern and Process." Annual Review of Earth and Planetary Sciences 42(1):421–441.
Hunt, G., M.J. Hopkins and S. Lidgard (2015). "Simple versus complex models of trait evolution and stasis as a response to environmental change." Proceedings of the National Academy of Sciences, United States of America 112: 4885–4890.
Krause, A. J., Mills, B. J. W., Merdith, A. S., Lenton, T. M., & Poulton, S. W. (2022). Extreme variability in atmospheric oxygen levels in the late Precambrian. Science Advances, 8(41), eabm8191.
Krause, A. J., Sluijs, A., Van Der Ploeg, R., Lenton, T. M., & Pogge Von Strandmann, P. A. E. (2023). Enhanced clay formation key in sustaining the Middle Eocene Climatic Optimum. Nature Geoscience, 16(8), 730–738.
Lauber, N., Tichacek, O., Narayanankutty, K., De Martino, D., & Ruiz-Mirazo, K. (2023). Modelling spatial constraints and scaling effects of catalyst phase separation on linear pathway kinetics (arXiv:2302.05315). arXiv.
Lidgard, S., & Love, A. C. (2023). Editorial: New perspectives on living fossils. Frontiers in Ecology and Evolution, 11, 1250106.
Liow, L. H., Uyeda, J., & Hunt, G. (2022). Cross-disciplinary information for understanding macroevolution. Trends in Ecology & Evolution, S0169534722002804.
Liu, Y., Carlisle, E., Zhang, H., Yang, B., Steiner, M., Shao, T., Duan, B., Marone, F., Xiao, S., & Donoghue, P. C. J. (2022). Saccorhytus is an early ecdysozoan and not the earliest deuterostome. Nature, 609(7927), 541–546.
López-Antoñanzas, R., Mitchell, J., Simões, T. R., Condamine, F. L., Aguilée, R., Peláez-Campomanes, P., Renaud, S., Rolland, J., & Donoghue, P. C. J. (2022). Integrative Phylogenetics: Tools for Palaeontologists to Explore the Tree of Life. Biology, 11(8), 1185.
Love, A. C., & Wagner, G. P. (2023). Telling stories about unseen ancestors. Current Biology, 33(16), R841–R842.
Love, A. C., Grabowski, M., Houle, D., Liow, L. H., Porto, A., Tsuboi, M., Voje, K. L., & Hunt, G. (2021). Evolvability in the fossil record. Paleobiology, 1–24.
Love, A.C., Grabowski, M., Houle, D., Hsiang Liow, L., Porto, A., Tsuboi, M., Voje, K.L. and Hunt, G. (2021). “Evolvability in the fossil record.” Paleobiology 1–24. Doi:10/1017/pab.2021.36.
Lowe, C. B., M. Kellis, A. Siepel, B.J. Raney, M. Clamp, S.R. Salama, D.M. Kingsley, K. Lindblad-Toh, and D. Haussler, (2011). “Three periods of regulatory innovation during vertebrate evolution.” Science 333:1019–1024.
Loyd, S. J., Meister, P., Liu, B., Nichols, K., Corsetti, F. A., Raiswell, R., Berelson, W., Shields, G., Hounslow, M., Waldron, J. W. F., Westrick-Snapp, B., & Hoffman, J. (2023). Temporal evolution of shallow marine diagenetic environments: Insights from carbonate concretions. Geochimica et Cosmochimica Acta, 351, 152–166.
McShea, D.W. and R.N. Brandon. (2010). Biology’s First Law: The Tendency for Diversity and Complexity to Increase in Biological Systems. Chicago: University of Chicago Press.
Murphy, J. L., Puttick, M. N., O’Reilly, J. E., Pisani, D., & Donoghue, P. C. J. (2021). Empirical distributions of homoplasy in morphological data. Palaeontology, 64(4), 505–518.
Nicholls, J. W. F., Chin, J. P., Williams, T. A., Lenton, T. M., O’Flaherty, V., & McGrath, J. W. (2023). On the potential roles of phosphorus in the early evolution of energy metabolism. Frontiers in Microbiology, 14, 1239189.
Nikolic, M. C., Hopkins, M. J., & Evans, A. R. (2023). Shared patterns of segment size development in trilobites and vertebrates. Evolution, 77(6), 1479–1487.
Ocaña-Pallarès, E., Williams, T. A., López-Escardó, D., Arroyo, A. S., Pathmanathan, J. S., Bapteste, E., Tikhonenkov, D. V., Keeling, P. J., Szöllősi, G. J., & Ruiz-Trillo, I. (2022). Divergent genomic trajectories predate the origin of animals and fungi. Nature.
Pisani, D., Rossi, M. E., Marlétaz, F., & Feuda, R. (2022). Phylogenomics: Is less more when using large-scale datasets? Current Biology, 32(24), R1340–R1342.
Provine, W. (1989). “Progress in evolution and meaning in life.” In Evolutionary Progress. Edited by M.H. Nitecki. Chicago: University of Chicago Press, 49–74.
Rudwick, M.J.S. (1972). The Meaning of Fossils: Episodes in the History of Paleontology. Chicago: University of Chicago Press.
Rudwick, M.J.S. (2005). Bursting the Limits of Time: The Reconstruction of Geohistory in the Age of Revolution. Chicago: University of Chicago Press.