ORCID profile
Google Scholar profile
Selected publications:
Plants:
Nicholls, J.A., Ringelberg, J.J., Dexter, K.G., Loiseau, O., Stone, G.N., Coley, P.D., Hughes, C.E., Kursar, T.A., Koenen, E.J.M., Garcia, F., Lemes, M.R., Neves, D.R.M., Endara, M.J., de Lima, H.C., Kidner, C.A. & R.T. Pennington (2025) Continuous colonization of the Atlantic coastal rain forests of South America from Amazônia. Proceedings of the Royal Society of London B 292: 20241559.
Goedderz, S., Clements, M.A., Bent, S.J., Nicholls, J.A., Patel, V.S., Crayn, D.M., Schlüter, P.M. & Nargar, K. (2024) Plastid phylogenomics reveals evolutionary relationships in the mycoheterotrophic orchid genus Dipodium and provides insights into plastid gene degeneration. Frontiers in Plant Science 15: 1388537.
Schmidt-Lebuhn, A.N., Egli, D., Grealy, A., Nicholls, J.A., Zwick, A., Dymock, J.J. & Gooden, B. (2024) Genetic data confirm the presence of Senecio madagascariensis in New Zealand. New Zealand Journal of Botany 62: 1-13.
Ringelberg, J.J., Koenen, E.J.M., Sauter, B., Aebli, A., Rando, J.G., Iganci, J.R., de Queiroz, L.P., Murphy, D.J., Gaudeul, M., Bruneau, A., Luckow, M., Lewis, G.P., Miller, J.T., Simon, M.F., Jordão, L.S.B., Morales, M., Bailey, C.D., Nageswara-Rao, M., Nicholls, J.A., Loiseau, O., Pennington, R.T., Dexter, K.G., Zimmermann, N.E., & Hughes, C.E. (2023) Precipitation is the main axis of tropical plant phylogenetic turnover across space and time. Science Advances 9: eade4954.
Hart, M.L., Forrest, L.L., Nicholls, J.A. & Kidner, C.A. (2016) Retrieval of hundreds of nuclear loci from herbarium specimens. Taxon 65: 1081-1092.
Nicholls, J.A., Pennington, R.T., Koenen, E.J.M., Hughes, C.E., Hearn, J., Bunnefeld, L., Dexter, K.G., Stone, G.N. & Kidner, C.A. (2015) Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae). Frontiers in Plant Science 6: 710.
Gallwasps:
Fang, Z., Tang, C.-T., Sinclair, F., Csóka, G., Hearn, J., McCormack, K., Melika, G., Mikolajczak, K.M., Nicholls, J.A., Nieves-Aldrey, J.-L., Notton, D.G., Radosevic, S., Bailey, R.I., Reiss, A., Zhang, Y.M., Zhu, Y., Fang, S., Schönrogge, K. & Stone, G.N. (2024) Network structure and taxonomic composition of tritrophic communities of Fagaceae, cynipid gallwasps and parasitoids in Sichuan, China. Insect Conservation and Diversity 17: 1046-1071.
Hearn, J., Gobbo, E., Nieves-Aldrey, J.L., Branca, A., Nicholls, J.A., Koutsovoulos, G., Lartillot, N., Stone, G.N. & Ronquist, F. (2024) Phylogenomic analysis of protein-coding genes resolves complex gall wasp relationships. Systematic Entomology 49: 110-137.
Nicholls, J.A., Schönrogge, K., Preuss, S. & Stone, G.N. (2018) Partitioning of herbivore hosts across time and food plants promotes diversification in the Megastigmus dorsalis oak gall parasitoid complex. Ecology and Evolution 8: 1300-1315.
Nicholls, J.A., Melika, G. & Stone, G.N. (2017) Sweet tetra-trophic interactions: multiple evolution of nectar secretion, a defensive extended phenotype in cynipid gallwasps. American Naturalist 189: 67-77.
Stone, G.N., Lohse, K., Nicholls, J.A., Fuentes-Utrilla, P., Sinclair, F., Schönrogge, K., Csóka, G., Melika, G., Nieves-Aldrey, J.-L., Pujade-Villar, J., Tavakoli, M., Askew, R.R. & Hickerson, M.J. (2012) Reconstructing community assembly in time and space reveals enemy escape in a Western Palaearctic insect community. Current Biology 22: 532-537.
Nicholls, J.A., Challis, R.J., Mutun, S. & Stone, G.N. (2012) Mitochondrial barcodes are diagnostic of shared refugia but not species in hybridising oak gallwasps. Molecular Ecology 21: 4051-4062.
Stone, G.N., Hernandez-Lopez, A., Nicholls, J.A., di Pierro, E., Pujade-Villar, J., Melika, G. & Cook, J.M. (2009) Extreme host plant conservatism during at least 20 million years of host plant pursuit by oak gallwasps. Evolution 63: 854-869.
Birds:
Shutt, J.D., Trivedi, U.H. & Nicholls, J.A. (2021) Faecal metabarcoding reveals pervasive long-distance impacts of garden bird feeding. Proceedings of the Royal Society of London B 288: 20210480.
Pavlova, A., Amos, J.N., Joseph, L., Loynes, K., Austin, J.J., Keogh, J.S., Stone, G.N., Nicholls, J.A. & Sunnucks, P. (2013) Perched at the mito-nuclear crossroads: divergent mitochondrial lineages correlate with environment in the face of ongoing nuclear gene flow in an Australian bird. Evolution 67: 3412-3428.
Nicholls, J.A., Austin, J.J., Goldizen, A.W. & and Moritz, C. (2006) Genetic population structure and call variation in a passerine bird, the satin bowerbird Ptilonorhynchus violaceus. Evolution 60: 1279-1290.
Nicholls, J.A. & Goldizen, A.W. (2006) Habitat type and density influence vocal signal design in satin bowerbirds. Journal of Animal Ecology 75: 549-558.
Nicholls, J.A., Double, M.C., Rowell, D.M. & Magrath, R.D. (2000) The evolution of cooperative and pair breeding in thornbills Acanthiza (Pardalotidae). Journal of Avian Biology 31: 165-176
