Dr Luke Dunning

All publications

Journal articles

• Cavalet-Giorsa E, González-Muñoz A, Athiyannan N, Holden S, Salhi A, Gardener C, Quiroz-Chávez J, Rustamova SM, Elkot AF, Patpour M , Rasheed A et al (2024) Origin and evolution of the bread wheat D genome. Nature.
• Alenazi AS, Pereira L, Christin P, Osborne CP & Dunning LT (2024) Identifying genomic regions associated with C4 photosynthetic activity and leaf anatomy in Alloteropsis semialata. New Phytologist. View this article in WRRO
• Raimondeau P, Bianconi ME, Pereira L, Parisod C, Christin P & Dunning LT (2023) Lateral gene transfer generates accessory genes that accumulate at different rates within a grass lineage. New Phytologist. View this article in WRRO
• Alenazi AS, Bianconi ME, Middlemiss E, Milenkovic V, Curran EV, Sotelo G, Lundgren MR, Nyirenda F, Pereira L, Christin P , Dunning LT et al (2023) Leaf anatomy explains the strength of C4 activity within the grass species Alloteropsis semialata. Plant, Cell and Environment.
• Wood DP, Holmberg JA, Osborne OG, Helmstetter AJ, Dunning LT, Ellison AR, Smith RJ, Lighten J & Papadopulos AST (2023) Genetic assimilation of ancestral plasticity during parallel adaptation to zinc contamination in Silene uniflora. Nature Ecology and Evolution.
• Dunning LT, Olofsson JK, Papadopulos AST, Hibdige SGS, Hidalgo O, Leitch IJ, Baleeiro PC, Ntshangase S, Barker N & Jobson RW (2022) Hybridisation and chloroplast capture between distinct Themeda triandra lineages in Australia. Molecular Ecology.
• Bianconi ME, Christin P-A & Dunning LT (2022) Inferring the genome-wide history of grasses. Molecular Plant.
• Bianconi ME, Sotelo G, Curran EV, Milenkovic V, Samaritani E, Dunning LT, Bertolino LT, Osborne CP & Christin P (2022) Upregulation of C4 characteristics does not consistently improve photosynthetic performance in intraspecific hybrids of a grass. Plant, Cell & Environment. View this article in WRRO
• Papadopulos AST, Helmstetter AJ, Osborne OG, Comeault AA, Wood DP, Straw EA, Mason L, Fay MF, Parker J, Dunning LT , Foote AD et al (2021) Rapid parallel adaptation to anthropogenic heavy metal pollution. Molecular Biology and Evolution. View this article in WRRO
• Hibdige SGS, Raimondeau P, Christin PA & Dunning LT (2021) Widespread lateral gene transfer among grasses. New Phytologist. View this article in WRRO
• Arthan W, Dunning LT, Besnard G, Manzi S, Kellogg EA, Hackel J, Lehmann CER, Mitchley J & Vorontsova MS (2021) Complex evolutionary history of two ecologically significant grass genera, Themeda and Heteropogon (Poaceae: Panicoideae: Andropogoneae). Botanical Journal of the Linnean Society.
• Bianconi ME, Dunning LT, Curran EV, Hidalgo O, Powell RF, Mian S, Leitch IJ, Lundgren MR, Manzi S, Vorontsova MS , Besnard G et al (2020) Contrasted histories of organelle and nuclear genomes underlying physiological diversification in a grass species. Proceedings of the Royal Society B: Biological Sciences, 287(1938). View this article in WRRO
• Phansopa C, Dunning LT, Reid JD & Christin P-A (2020) Lateral gene transfer acts as an evolutionary shortcut to efficient C4 biochemistry. Molecular Biology and Evolution, 37(11), 3094-3104. View this article in WRRO
• Dunning LT & Christin P (2020) Reticulate evolution, lateral gene transfer, and innovation in plants. American Journal of Botany, 107(4), 541-544.
• Olofsson JK, Dunning LT, Lundgren MR, Barton HJ, Thompson J, Cuff N, Ariyarathne M, Yakandawala D, Sotelo G, Zeng K , Osborne CP et al (2019) Population-specific selection on standing variation generated by lateral gene transfers in a grass. Current Biology, 29. View this article in WRRO
• Papadopulos AST, Igea J, Dunning LT, Osborne OG, Quan X, Pellicer J, Turnbull C, Hutton I, Baker WJ, Butlin RK & Savolainen V (2019) Ecological speciation in sympatric palms : 3. Genetic map reveals genomic islands underlying species divergence in Howea. Evolution, 73(9), 1986-1995.
• Dunning LT, Moreno-Villena JJ, Lundgren MR, Dionora J, Salazar P, Adams C, Nyirenda F, Olofsson JK, Mapaura A, Grundy IM , Kayombo CJ et al (2019) Key changes in gene expression identified for different stages of C4 evolution in Alloteropsis semialata.. Journal of Experimental Botany. View this article in WRRO
• Olofsson JK, Cantera I, Van de Paer C, Hong‐Wa C, Zedane L, Dunning LT, Alberti A, Christin PA & Besnard G (2019) Phylogenomics using low‐depth whole genome sequencing: a case study with the olive tribe. Molecular Ecology Resources. View this article in WRRO
• Dunning LT, Olofsson JK, Parisod C, Choudhury RR, Moreno-Villena JJ, Yang Y, Dionora J, Quick WP, Park M, Bennetzen JL , Besnard G et al (2019) Lateral transfers of large DNA fragments spread functional genes among grasses. Proceedings of the National Academy of Sciences, 116(10), 4416-4425. View this article in WRRO
• Lundgren MR, Dunning LT, Olofsson JK, Moreno‐Villena JJ, Bouvier JW, Sage TL, Khoshravesh R, Sultmanis S, Stata M, Ripley BS , Vorontsova MS et al (2019) C4 anatomy can evolve via a single developmental change. Ecology Letters, 22(2), 302-312. View this article in WRRO
• Wood DP, Olofsson JK, McKenzie SW & Dunning LT (2018) Contrasting phylogeographic structures between freshwater lycopods and angiosperms in the British Isles. Botany Letters, 165(3-4), 476-486. View this article in WRRO
• Bianconi ME, Dunning LT, Moreno-Villena JJ, Osborne CP & Christin P-A (2018) Gene duplication and dosage effects during the early emergence of C4 photosynthesis in the grass genus Alloteropsis. Journal of Experimental Botany, 69(8), 1967-1980. View this article in WRRO
• Moreno-Villena JJ, Dunning LT, Osborne CP & Christin P-A (2018) Highly Expressed Genes Are Preferentially Co-Opted for C4 Photosynthesis. Molecular Biology and Evolution, 35(1), 94-106. View this article in WRRO
• Dunning LT, Liabot A-L, Olofsson JK, Smith EK, Vorontsova MS, Besnard G, Simpson KJ, Lundgren MR, Addicott E, Gallagher RV , Chu Y et al (2017) The recent and rapid spread of Themeda triandra. Botany Letters, 164(4), 327-337. View this article in WRRO
• Dunning LT, Lundgren MR, Moreno-Villena JJ, Namaganda M, Edwards EJ, Nosil P, Osborne CP & Christin P-A (2017) Introgression and repeated co-option facilitated the recurrent emergence of C4 photosynthesis among close relatives.. Evolution, 71(6), 1541-1555. View this article in WRRO
• Olofsson JK, Bianconi M, Besnard G, Dunning LT, Lundgren MR, Holota H, Vorontsova MS, Hidalgo O, Leitch IJ, Nosil P , Osborne CP et al (2016) Genome biogeography reveals the intraspecific spread of adaptive mutations for a complex trait. Molecular Ecology, 25(24), 6107-6123. View this article in WRRO
• Ciezarek AG, Dunning LT, Jones CS, Noble LR, Humble E, Stefanni SS & Savolainen V (2016) Substitutions in the Glycogenin-1 Gene Are Associated with the Evolution of Endothermy in Sharks and Tunas. Genome Biology and Evolution, 8(9), 3011-3021. View this article in WRRO
• Dunning LT, Hipperson H, Baker WJ, Butlin RK, Devaux C, Hutton I, Igea J, Papadopulos AST, Quan X, Smadja CM , Turnbull CGN et al (2016) Ecological speciation in sympatric palms: 1. Gene expression, selection and pleiotropy. Journal of Evolutionary Biology. View this article in WRRO
• Hipperson H, Dunning LT, Baker WJ, Butlin RK, Hutton I, Papadopulos AST, Smadja CM, Wilson TC, Devaux C & Savolainen V (2016) Ecological speciation in sympatric palms: 2. Pre- and post-zygotic isolation. Journal of Evolutionary Biology. View this article in WRRO
• Swift DG, Dunning LT, Igea J, Brooks EJ, Jones CS, Noble LR, Ciezarek A, Humble E & Savolainen V (2016) Evidence of positive selection associated with placental loss in tiger sharks. BMC Evolutionary Biology, 16(1). View this article in WRRO
• Dennis AB, Dunning LT, Sinclair BJ & Buckley TR (2015) Parallel molecular routes to cold adaptation in eight genera of New Zealand stick insects. Scientific Reports, 5(13965). View this article in WRRO
• Cornetti L, Valente LM, Dunning LT, Quan X, Black RA, Hébert O & Savolainen V (2015) The Genome of the “Great Speciator” Provides Insights into Bird Diversification. Genome Biology and Evolution, 7(9), 2680-2691. View this article in WRRO
• Papadopulos AST, Kaye M, Devaux C, Hipperson H, Lighten J, Dunning LT, Hutton I, Baker WJ, Butlin RK & Savolainen V (2014) Evaluation of genetic isolation within an island flora reveals unusually widespread local adaptation and supports sympatric speciation. Philosophical Transactions of the Royal Society B: Biological Sciences, 369(1648). View this article in WRRO
• Dunning LT, Dennis AB, Sinclair BJ, Newcomb RD & Buckley TR (2014) Divergent transcriptional responses to low temperature among populations of alpine and lowland species of New Zealand stick insects (Micrarchus). Molecular Ecology, 23(11), 2712-2726.
• Dennis AB, Dunning LT, Dennis CJ, Sinclair BJ & Buckley TR (2014) Overwintering in New Zealand stick insects. New Zealand Entomologist, 37(1), 35-44.
• Dunning LT, Dennis AB, Thomson G, Sinclair BJ, Newcomb RD & Buckley TR (2013) Positive selection in glycolysis among Australasian stick insects. BMC Evolutionary Biology, 13(1). View this article in WRRO
• Dunning LT, Dennis AB, Park D, Sinclair BJ, Newcomb RD & Buckley TR (2013) Identification of cold-responsive genes in a New Zealand alpine stick insect using RNA-Seq. Comparative Biochemistry and Physiology Part D: Genomics and Proteomics, 8(1), 24-31.
• Baraloto C, Hardy OJ, Paine CET, Dexter KG, Cruaud C, Dunning LT, Gonzalez M-A, Molino J-F, Sabatier D, Savolainen V & Chave J (2012) Using functional traits and phylogenetic trees to examine the assembly of tropical tree communities. Journal of Ecology, 100(3), 690-701.
• () A nuclear phylogenomic tree of grasses (Poaceae) recovers current classification despite gene tree incongruence. New Phytologist.
• Jobson RW & Dunning L () A new species of Vallisneria L. for Western Australia and recircumscription of V. triptera S.W.L.Jacobs & K.Frank. Telopea, 27.
• Sotelo G, Gamboa S, Dunning LT, Christin P & Varela S () C₄ photosynthesis provided an immediate demographic advantage to populations of the grass Alloteropsis semialata. New Phytologist.
• Olofsson JK, Tyler T, Dunning LT, Hjertson M, Rühling Å & Hansen AJ () Morphological and genetic evidence suggest gene flow among native and naturalized mint species. American Journal of Botany.
• Pereira L, Bianconi ME, Osborne CP, Christin P-A & Dunning LT () Alloteropsis semialata as a study system for C4 evolution in grasses. Annals of Botany.
• Pereira L & Dunning LT () Extrachromosomal circular DNA as a vehicle to gene transfer in plants. Plant Physiology.
• Pereira L, Christin P & Dunning LT () The mechanisms underpinning lateral gene transfer between grasses. PLANTS, PEOPLE, PLANET.
• Young SNR, Dunning LT, Liu H, Stevens CJ & Lundgren MR () C4 trees have broader niches than their close C3 relatives. Journal of Experimental Botany.
• Olofsson JK, Curran EV, Nyirenda F, Bianconi ME, Dunning LT, Milenkovic V, Sotelo G, Hidalgo O, Powell RF, Lundgren MR , Leitch IJ et al () Low dispersal and ploidy differences in a grass maintain photosynthetic diversity despite gene flow and habitat overlap. Molecular Ecology.
• DUNNING LT & SAVOLAINEN V () Broad-scale amplification of matK for DNA barcoding plants, a technical note. Botanical Journal of the Linnean Society, 164(1), 1-9.

Chapters

• Ramstad KM & Dunning LT (2020) Population Genomics Advances and Opportunities in Conservation of Kiwi (Apteryx spp.), Population Genomics Springer International Publishing

Preprints

• Osborne OG, Wood DP, Dobreva MP, Dunning LT, Tucker R, Coates SER, Pellicer J, Holmberg J, Algar AC, Bocedi G , Gubry-Rangin C et al (2024) Chromosome-scale genome assembly and linkage map forSilene uniflorareveal the recombination landscape in a rapidly evolving plant species, Cold Spring Harbor Laboratory.
• Arthan W, Baker WJ, Barrett MD, Barrett RL, Bennetzen J, Besnard G, Bianconi ME, Birch JL, Catalán P, Chen W , Christenhusz M et al (2024) Nuclear phylogenomics of grasses (Poaceae) supports current classification and reveals repeated reticulation, Cold Spring Harbor Laboratory.
• Coates SER, Comeault AA, Wood DP, Fay MF, Creer S, Osborne OG, Dunning LT & Papadopulos AST (2024) Plastic responses to past environments shape adaptation to novel selection pressures, Cold Spring Harbor Laboratory.
• Alenazi AS, Pereira L, Christin P-A, Osborne CP & Dunning LT (2024) Identifying leaf anatomy and metabolic regulators that underpin C₄photosynthesis inAlloteropsis semialata, Cold Spring Harbor Laboratory.
• Cavalet-Giorsa E, González-Muñoz A, Athiyannan N, Holden S, Salhi A, Gardener C, Quiroz-Chávez J, Rustamova SM, Elkot AF, Patpour M , Rasheed A et al (2023) Origin and evolution of the bread wheat D genome, Cold Spring Harbor Laboratory.
• Raimondeau P, Bianconi ME, Pereira L, Parisod C, Christin P-A & Dunning LT (2022) Variation in the rate lateral gene transfers accumulate in a grass lineage, Cold Spring Harbor Laboratory.
• Olofsson J, Tyler T, Dunning L, Hjertson M, Rühling Å & Hansen A (2022) Inter-specific gene flow following the naturalization of a cultivated mint promotes the formation of a coalescent complex, Authorea.
• Wood DP, Holmberg JA, Osborne OG, Helmstetter AJ, Dunning LT, Ellison AR, Smith RJ, Lighten J & Papadopulos AST () Genetic assimilation of ancestral plasticity during parallel adaptation, Cold Spring Harbor Laboratory.
• Dunning LT, Oloffson JK, Papadopulos AST, Baleeiro PC, Ntshangase S, Barker N & Jobson RW () Hybridisation and chloroplast capture between ancient Themeda triandra ecotypes in Australia, Cold Spring Harbor Laboratory.
• Bianconi ME, Sotelo G, Curran EV, Milenkovic V, Samaritani E, Dunning LT, Bertolino LT, Osborne CP & Christin P-A () Upregulation of C4 characteristics does not consistently improve photosynthetic performance in intraspecific hybrids of a grass, Cold Spring Harbor Laboratory.
• Olofsson J, Curran E, Nyirenda F, Bianconi M, Dunning L, Milenkovic V, Sotelo G, Hidalgo O, Powell R, Lundgren M , Leitch IJ et al () Low dispersal and recurrent polyploidization in a grass maintain photosynthetic diversity despite gene flow and habitat overlap, Authorea, Inc..
• Papadopulos AST, Helmstetter AJ, Osborne OG, Comeault AA, Wood DP, Straw EA, Mason L, Fay MF, Parker J, Dunning LT , Foote AD et al () Rapid Parallel Adaptation to Anthropogenic Heavy Metal Pollution, Cold Spring Harbor Laboratory.