
Research Publications
2004 Publication list
Author/s |
Title |
Journal |
Asmussen, M.A., Cartwright, R.A. and Spencer, H.G. | Frequency-dependent selection with dominance: A window onto the behavior of the mean fitness. | Genetics 167: 499-512. |
Bashford, J.D., Jarvis, P.D., Sumner, J. and Steel, M. | U(1) x U(1) x U(1) symmetry of the Kimura 3ST model and phylogenetic branching processes. | J. Phys. A: Math. Gen. 37: L81–L89. |
Bateson, P., Barker, D., Clutton-Brock, T., Deb, D., Foley, R.A., Gluckman, P., Godfrey, K., Kirkwood, T., Mirazón Lahr, M., Macnamara, J., Metcalfe, N.B., Monaghan, P., Spencer, H.G. and Sultan, S.E. | Developmental plasticity and human health. | Nature 430: 419-421. |
Collins, L.J. and Penny, D. | Lost in the RNA World – the genomics of ncRNA. | New Zealand Bio Science 13, 38-40. |
D. Penny and M. J. Phillips. | The rise of birds and mammals: are microevolutionary processes sufficient for macroevolution?. | Trends in Ecology and Evolution. 19(10):516-522. |
Donald, K.M., Kennedy, M., Poulin, R. and Spencer, H.G. | Host specificity and molecular phylogeny of larval Digenea isolated from New Zealand and Australian topshells (Gastropoda: Trochidae). | Int J Parasitol. 34(5):557-68. |
Esser, C., Ahmadinejad, N., Wiegand, C., Rotte, C., Sebastiani, F., Gelius-Dietrich, G., Henze, K., Kretschmann, E., Richly, E., Leister, D., Bryant, D., Steel, M., Lockhart, P.J., Penny, D. and Martin, W. | A genome phylogeny for mitochondria among a-proteobacteria and a predominantly eubacterial ancestry of yeast nuclear genes. | Mol. Biol. Evol. 21(9): 1643--1660. |
Guindon, S., Rodrigo, A.G., Dyer, K.A., and Huelsenbeck, J.P. | Modeling the site-specific variation of selection patterns along lineages. | PNAS 101: 12957-12962. |
Hare, K.M., Miller, J.H. and Daugherty, C.H. | How do nocturnal lizards function at cool night temperatures? (abstract) | New Zealand Journal of Zoology 31: 103-104. |
Hare, K.M., Pledger, S., Thompson, M.B., Miller, J.H., and Daugherty, C.H. | Conditioning reduces metabolic rate and time to steady-state in the lizard Naultinus manukanus (Reptilia: Gekkonidae). | Comparative Biochemistry and Physiology, Part A 139: 245-250. |
Harrison G.L., McLenachan P.A., Phillips M.J., Slack K.E., Cooper A., and Penny, D. | Four new avian mitochondrial genomes help get to basic evolutionary questions in the Late Cretaceous. | Mol. Biol. Evol. 21(6):974-983. |
Hay, J.M., Sarre, S.D. and Daugherty, C.H. | Nuclear mitochondrial pseudogenes as molecular outgroups for phylogenetically isolated taxa: a case study in Sphenodon. | Heredity 93: 468-475. |
Hoare, J.M., Pledger, S.A., Keall, S.N., Nelson, N.J., Mitchell, N.J., and Daugherty, C.H. | A long-term decline in body condition of the Brothers Island tuatara, Sphenodon guntheri. (abstract) | New Zealand Journal of Zoology 31: 104. |
Hordijk, W. and Steel, M. | Detecting autocatalyctic, self-sustaining sets in chemical reaction systems. | Journal of Theoretical Biology 227(4): 451-461. |
Huson, D. H. Dezulian, T., Klöpper, T., Steel. M.A. | Phylogenetic Super-Networks from Partial Trees IEEE/ACM Transactions on Computational Biology and Bioinformatics. | Vol. 1(4): 151-158. |
Huson, D.H. and Steel, M. | Distances that perfectly mislead. | Systematic Biology 53(2): 327-332. |
Kennedy, M. and Spencer, H.G. | Phylogeny of the Frigatebirds (Fregatidae) and Tropicbirds (Phaethonidae), two divergent groups of the traditional order Pelecaniformes, inferred from mitochondrial DNA sequences. | Molecular Phylogenetics and Evolution 31(1):31-8 |
Longson, C., Hare, K.M., and Daugherty, C.H. | Fluctuating assymetry is not a sensitive indicator of environmental stress in the egg-laying skink, Oligosoma suteri. (abstract) | New Zealand Journal of Zoology 31: 105-106. |
M. J. Phillips, F. Delsuc and D. Penny. | Genome-Scale Phylogeny and the Detection of Systematic Biases. | Mol. Biol. Evol. 21(7):1455–1458. |
Matisoo-Smith, E. and Robins, J.H. | Origins and Dispersals of Pacific peoples: Evidence from mtDNA phylogenies of the Pacific rat. | PNAS 101 (24): 9167-9172. |
Miller, H.C and Lambert, D.M | Gene duplication and gene conversion in class II MHC genes of New Zealand robins (Petroicidae). | Immunogenetics. 56: 178-191. |
Miller, H.C. and Lambert, D.M. | Genetic drift outweighs balancing selection in shaping post-bottleneck MHC variation in New Zealand robins (Petroicidae). | Molecular Ecology 13: 3709-3721. |
Morgan-Richards, M., Trewick, S. A., and Chapman, H. M. | Evidence of hybridisation among Hieracium species in New Zealand from flow cytometry. | Heredity 92: 1-9. |
Mossel, E. and Steel, M. | A phase transition for a random cluster model on phylogenetic trees. | Mathematical Biosciences. 187: 189-203 |
Nelson, N.J. | The “Tuatara Roadshow” and conservation in New Zealand. | 2004 Annual report of the Center for Reproduction of Endangered Species, Zoological Society of San Diego. |
Nelson, N.J. | Tuatara conservation in New Zealand | 2004 Annual report of the Center for Reproduction of Endangered Species, Zoological Society of San Diego. |
Nelson, N.J., Cree, A., Thompson, M.B., Keall, S.N., and Daugherty, C.H. | Temperature-dependent sex determination in tuatara. | In Temperature-Dependent Sex Determination, Valenzuela, N., and V. Lance (eds.). Smithsonian Institution Press. |
Nelson, N.J., Thompson, M.B., Pledger, S., Keall, S.N. and Daugherty, C.H. | Do TSD, sex ratios, and nest characteristics influence the vulnerability of tuatara to global warming? | Pages 250-257 in S. Morris and A Vosloo, editors. Animals and Environments: Proceedings of the Third International Conference of Comparative Physiology and Biochemistry. Elsevier, KwaZulu-Natal, South Africa. |
Nelson, N.J., Thompson, M.B., Pledger, S., Keall, S.N., and Daugherty, C.H. | Do TSD, sex ratios, and nest characteristics influence the vulnerability of tuatara to global warming? | International Congress Series 1275 (2004): 250-257. |
Nelson, N.J., Thompson, M.B., Pledger, S., Keall, S.N., and Daugherty, C.H. | Egg mass determines hatchling size, and incubation temperature influences post-hatching growth, of tuatara, Sphenodon punctatus. | Journal of Zoology, London 263: 77-87. |
Nelson, N.J., Thompson, M.B., Pledger, S., Keall, S.N., and Daugherty, C.H. | Induction of oviposition produces smaller eggs in tuatara (Sphenodon punctatus). | New Zealand Journal of Zoology 31: 283-289. |
Norris, T.B., Rickards, G.K. and Daugherty C.H. | Chromosomes of tuatara, Sphenodon, a chromosome heteromorphism and an archaic reptilian karyotype. | Cytogenetic and Genome Research 105: 93-99. |
O’Shea, S., Bolstad, K. and Ritchie, P.A. | First records of egg masses of Nototodarus gouldi McCoy, 1888 (Mollusca: Cephalopoda: Ommastrephidae), with comments on egg-mass susceptibility to damage by fisheries trawl. | New Zealand Journal of Zoology 31:161-166. |
Penny, D. | Our relative genetics. | Nature 427, 208-209. |
Prechtl, J., Kneip, C., Lockhart, P.J., Wenderoth, K. and Maier, U.-G. | Intracellular sphaeroid bodies of Rhopalodia gibba have nitrogen fixing apparatus of cyanobacterial origin. | Mol. Biol. Evol. 21(8): 1477-1481. |
Ramstad, K.M., Nelson, N.J., Daugherty, C.H., and Allendorf, F.W. | Integrating traditional Māori and scientific ecological knowledge of the tuatara (Sphenodon). (abstract) | New Zealand Journal of Zoology 31: 107. |
Ritchie, P.A. and Lambert, D.M. | Late-Holocene penguin occupation and diet at King George Island, Antarctic Peninsula. | American Geophysical Union, Antarctic Research Series 79: 171-180. |
Ritchie, P.A., Millar, C.D., Gibb, G., Baroni, C. and Lambert, D. M. | Ancient DNA enables timing of the Pleistocene origin and Holocene expansion of two Adelie penguin lineages in Antarctica. | Molecular Biology and Evolution 21 (2): 240-248. |
Semple, C. and Steel, M. | Cyclic permutations and evolutionary trees. | Advances in Applied Mathematics 32(4): 669-680. |
Spencer, H.G., Feldman, M.W., Clark A.G. and Weisstein, A.E. | The effect of genetic conflict on genomic imprinting and modification of expression at a sex-linked locus. | Genetics166: 565-579. |
Steel, M. and Penny. D. | Two further links between MP and ML under the Poisson Model. | Applied Mathematics Letters 17(7): 785-790. |
Stevens, M.I., and Hogg, I.D. | Population genetic structure of New Zealand’s endemic corophiid amphipods: evidence for allopatric speciation. | Biological Journal of the Linnean Society 81: 119-133. |
Trewick, S.A., Morgan-Richards, M. & Chapman, H.M. | DNA diversity of Hieracium pilosella (Asteraceae) introduced to New Zealand: reticulation, hybridization, and invasion. | Chloroplast American Journal of Botany, 91: 73-85. |
Woodhams, M.D. and Hendy, M.D. | Reconstructing phylogeny by Quadratically Approximated Maximum Likelihood. | Bioinformatics 20(1): i348–i354. |