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Journal Publications
  1. Crisp MD, Bui MQ, Choi B, Edwards RD, Hereward J, Külheim C, Lin YP, Meusemann K, Thornhill AH, Toon A, Cool LG (2023) Perianth evolution and implications for generic delimitation in the Eucalypts (Myrtaceae), including the description of the genus, Blakella. Journal of Systematics and Evolution [in print]

  2. Kapoor B, Jenkins J, Schmutz J, Zhebentyayeva T, Külheim C, Coggenshall M, Heim C, Lasky JR, Leites L, Islam-Faridi N, Romero-Severson J, DeLeo VL, Lucas SM, Lazic D, Gailing O, Carlson J, Staton M (2023) A haplotype-resolved chromosome-scale genome for Quercus rubra L. provides insights into the genetics of adaptive traits for red oak species. G3: Genes Genome Genetics 13: jkad209

  3. Lindback EC, Rauschendorfer JK, Burton AJ, Külheim C, Cavaleri MA (2023) Common garden study reveals frost-tolerant northern seed sources are best suited to expand range of Quercus rubra. Forest Ecology and Management 539: 120985

  4. Chakrabarty P*, Hsieh J-F*, Foley WJ, Külheim C ­(2023) Evolutionary relationship of the NBS-LRR gene family in Melaleuca and Eucalyptus (Myrtaceae). Tree Genetics & Genomes 19: 25

  5. Ghirado A, Blande J, Ruehr NK, Balestrini RM, Külheim C (2022) Adaptation of Trees to Climate Change: Mechanisms Behind Physiological and Ecological Resilience and Vulnerability Frontiers in Forests and Global Change 4: 831701

  6. Mhoswa L, Slipper B, Myburg AA, Külheim C, Naidoo S (2022) Genome-wide association study identifies SNP markers and putative candidate genes for terpene profiles in Eucalyptus grandis. G3: Genes Genome Genetics 12: jkac004

  7. Rauschendorfer J*, Rooney RΔ, Külheim C (2022) Strategies to mitigate shifts in red oak (Quercus sect. Lobatae) distribution under a climate change. Tree Physiology 42: 2383-2400

  8. Hsieh S*, Krause S, Kainer D*, Degenhardt J, Foley WJ, Külheim C (2021) Terpene profiling and functional characterization of terpene synthases responsive to myrtle rust in Melaleuca quinquenervia. Plant Environment Interactions 2: 177-193

  9. Orr AJ, Padovan A, Kainer D, Külheim C, Bromham L, Bustos-Segura C, Foley WJ, Haff T, Hsieh J-F, Morales-Suarez A, Cartwright RA, Lanfear R (2020) A phylogenomic approach reveals a low somatic mutation rate in a long-lived plant. Proceeding of the Royal Society B 287: 20192364 

  10. Rauschendorfer J, Yordanov Y, Dobrev P, Vankova R, Sykes R, Külheim C, Busov V (2020) Overexpression of a developing xylem cDNA library in transgenic poplar generates high mutation rate specific to wood formation. Plant Biotechnology Journal 18: 1434-1443 

  11. Marsh KJ, Wallis IR, Külheim C, Clark R, Nicolle D, Foley WJ, Salminen J-P (2020) New approaches to tannin analysis of leaves explain biological activity associated with herbivore defence. New Phytologist 225: 488-498 

  12. Choi B, Crisp MD, Cook LG, Edwards BD, Toon A, Külheim C (2019) Identifying genetic markers for a range of phylogenetic utility – from species to family level. PLoS One 14: e0218995 

  13. Kainer D, Padovan A, Degenhardt J, Krause S, Mondal P, Foley WJ, Külheim C (2019) High marker density GWAS provides novel insights into the genomic architecture of terpene oil yield in Eucalyptus. New Phytologist 223: 1489-1504 

  14. Thornhill AH, Crisp MD, Külheim C, Lam KE, Nelson LA, Yeates DK, Miller JT (2019) A dated molecular perspective of eucalypt taxonomy, evolution, and diversification. Australian Systematic Botany 32: 29-48 

  15. Kanagendran A, Pazouki L, Bichele R, Külheim C, Niinemets Ü (2018) Temporal regulation of terpene synthase gene expression in Eucalyptus globulus leaves upon ozone and wounding stresses: relationships with stomatal ozone uptake and emission responses. Environmental and Experimental Botany 155: 552-565 

  16. Kainer D, Stone E, Padovan A, Foley WJ, Külheim C (2018) High accuracy genomic prediction for foliar terpene traits in Eucalyptus polybractea. G3 – Genes, Genomes, Genetics 8: 2573-2583 

  17. Naidoo S, Christie N, Acosta JJ, Mphahlele M, Payn K, Myburg AA, Külheim C (2018) Terpenes associated with resistance against the gall wasp, Leptocybe invasa, in Eucalyptus grandis. Plant, Cell & Environment 41: 1840-1851 

  18. Hsieh J-F, Chuah A, Patel H, Sandhu K, Foley WJ, Külheim C (2018) Transcriptome profiling of resistant and susceptible Melaleuca quinquenervia reveals defense mechanisms against the exotic pathogen myrtle rust (Austropuccinia psidii). Phytopathology: 108: 495-509

  19. Tobias PA, Guest DI, Külheim C, Park RF (2018) Identification of candidate genes involved in resistance to Austropuccinia psidii (myrtle rust) in Syzygium luehmannii (riberry). Phytopathology: 108: 627-640

  20. Ranjard L, Wong TKF, Külheim C, Rodrigo AG, Ragg NLC, Dunphy BJ (2018) Complete mitochondrial genome of the green-lipped mussel, Perna canaliculus (Mollusca: Mytiloidea), from long nanopore sequencing reads. Mitochondrial DNA Part B: Resources 3: 175-176 

  21. Padovan A, Keszei A, Hassan Y, Krause ST, Köllner TG, Degenhardt J, Gershenzon J, Külheim C, Foley WJ (2017) Four terpene synthases contribute to the generation of different chemotypes in tea tree (Melaleuca alternifolia). BMC Plant Biology 17:160 

  22. Bustos-Segura C, Padovan A, Kainer D, Foley WJ, Külheim C (2017) Transcriptome analysis of terpene chemotypes of Melaleuca alternifolia across different tissues. Plant, Cell & Environment DOI: 10.1111/pce.13048 

  23. Padovan A, Webb H, Mazenek R, Grayling P, Foley WJ, Külheim C (2017) Association genetics of essential oil traits in Eucalyptus loxophleba: explaining variation in oil yield. Molecular Breeding 37: 73

  24. Bustos-Segura C, Dillon S, Keszei A, Foley WJ, Külheim C (2017) Intraspecific diversity of terpenes of Eucalyptus camaldulensis at a continental scale. Australian Journal of Botany 65: 257-269 

  25. Tobias PA, Christie N, Naidoo S, Külheim C (2017) Identification of the Eucalyptus grandis chitinase gene family and expression characterization under different biotic stress challenges. Tree Physiology 37: 565-582 

  26. Kainer D, Bush D, Foley WJ, Külheim C (2017) Components of oil yield in a commercial plantation of Eucalyptus polybractea (blue malee). Industrial Crops and Products 102: 32-44 

  27. Marsh KJ, Külheim C, Thornhill AH, Miller JT, Wallis IR, Nicolle D, Sakminen J-P, Foley WJ (2017) Genus-wide variation in foliar polyphenolics in eucalypts: Phylogenetic constraints and evidence for selection on functional traits of tannins. Phytochemistry DOI:10.1016/j.phytochem.2017.09.014 

  28. Mewalal R, Rai DK, Kainer D, Chen F, Külheim C, Peter GF, Tuskan GA (2017) Plant-derived terpenes: A feedstock for speciality biofuels. Trends in Biotechnology 35: 227-240 

  29. González-Orozco CE, Pollock LJ, Thornhill AH, Mishler BD, Knerr N, Laffan SW, Miller JT, Rosauer DF, Faith DP, Nipperess DA, Kujala H, Linke S, Butt N, Külheim C, Crisp MD, Gruber B (2016) Phylogenetic approaches reveal biodiversity threats under climate change. Nature Climate change 6: 1110-1114 

  30. Tobias PA, Guest DI, Külheim C, Hsieh J-F, Park RF (2016) A curious case of resistance to a new encounter pathogen: myrtle rust in Australia. Molecular Plant Pathology 17: 783-788 

  31. Christie N, Tobias PA, Naidoo S, Külheim C (2015) The Eucalyptus grandis NBS-LRR gene family: Physical Clustering and Expression hotspots. Frontiers in Plant Science 6: 1238 

  32. Bustos-Segura C, Külheim C, Foley WJ (2015) Effects of terpene chemotypes of Melaleuca alternifolia on two specialist leaf beetles and susceptibility to myrtle rust. Journal of Chemical Ecology 41: 937-947 

  33. Kainer D, Lanfear R, Foley WJ, Külheim C (2015) Genomic approaches to selection in outcrossing perennials: Focus on essential oil crops. Theoretical and Applied Genetics DOI: 10.1007/s00122-015-2591-0 

  34. Külheim C, Padovan A, Hefer C, Krause ST, Köllner TG, Myburg AA, Degenhardt J, Foley WJ (2015) The Eucalyptus terpene synthase gene family. BMC Genomics 16: 450 

  35. Padovan A, Patel HR, Chuah A, Huttley GA, Krause ST, Degenhardt J, Foley WJ, Külheim C (2015) Transcriptome sequencing of two phenotypic mosaic Eucalyptus trees reveals large scale transcriptome re-modelling. PLoS One 10: e0123226 

  36. Thornhill AH, Ho SYW, Külheim C, Crisp MD (2015) Interpreting the modern distribution of Myrtaceae using a dated molecular phylogeny. Molecular Phylogenetics and Evolution 93: 29-43 

  37. Tobias PA, Park RF, Külheim C, Guest DI (2015) Wild-sourced Chamelaucium uncinatum have no resistance to Puccinia psidii (myrtle rust). Australasian Plant Disease Notes 10: 15 

  38. Visser EA, Mangwanda R, Becker JVW, Külheim C, Foley WJ, Myburg AA, Naidoo S (2015) Foliar terpenoid levels and corresponding gene expression are systemically and differentially induced in Eucalyptus grandis clonal genotypes in response to Chrysoporthe austroafricana challenge. Plant Pathology doi: 10.1111/ppa. 12368 

  39. Oates CN, Külheim C, Myburg AA, Slippers B, Naidoo S (2015) The transcriptome and terpene profile of Eucalyptus grandis reveals mechanisms of defence against the insect pest Leptocybe invasa. Plant and Cell Physiology 56: 1418-1428 

  40. Naidoo S, Külheim C, Zwart L, Mangwanda R, Oates C, Visser E, Wilken FE, Mamni TB, Myburg AA (2014) Uncovering the defence response of Eucalyptus to pests and pathogens in the genomics age. Tree Physiology 34: 931-943 

  41. Myburg AA, Grattapaglia D, Tuskan GA, … , Külheim C, Foley WJ, … , Van de Peer Y, Rokhsar DS, Schmutz J (2014) The genome of Eucalyptus grandis. Nature 510: 356-362 

  42. Webb H, Foley WJ, Külheim C (2014) The genetic basis of foliar terpene yield: Implications for breeding and profitability of Australian essential oil crops. Plant Biotechnology 31: 363-376 

  43. Külheim C, Jones CG, Plummer JA, Ghisalberti EL, Barbour L, Bohlmann J (2014) Foliar application of methyl jasmonate does not increase terpenoid accumulation, but weakly elicits terpenoid pathway genes in sandalwood (Santalum album L.) seedlings. Plant Biotechnology 31: 585-591

  44. Padovan A, Keszei A, Külheim C, Foley WJ (2014) The evolution of foliar terpene diversity in Myrtaceae. Phytochemistry Reviews 13: 695-716 

  45. Moore B, Andrew R, Külheim C, Foley WJ (2014) Explaining intraspecific diversity in plant secondary metabolites in an ecological context. New Phytologist 201: 733-750 

  46. Webb H, Lanfear R, Hamill J, Foley WJ, Külheim C (2013) The yield of essential oils in Melaleuca alternifolia (Myrtaceae) is regulated through transcript abundance of genes in the MEP pathway. PLoS One 8(3): e60631

  47. Padovan A, Lanfear R, Keszei A, Foley WJ, Külheim C (2013) Differences in gene expression within a striking phenotypic mosaic Eucalyptus tree that varies in susceptibility to herbivory. BMC Plant Biology 13: 29

  48. Grattapaglia D, Vaillancourt RE, Sheperd M, Thumma BR, Foley WJ, Külheim C, Potts BM, Myburg A (2012) Progress in Myrtaceae genomics: Eucalyptus as the pivotal genus. Tree Genetics and Genomes 8: 463-508 

  49. Külheim C, Yeoh SH, Wallis IR, Laffan S, Moran GF, Foley WJ (2011) The molecular basis of quantitative variation in foliar secondary metabolites in Eucalyptus globulus. New Phytologist 191: 1041-1053 

  50. Külheim C, Yeoh SH, Maintz J, Foley WJ, Moran GF (2009) Comparative SNP diversity among four Eucalyptus species for genes from secondary metabolism biosynthetic pathways. BMC Genomics 10: 452

  51. Philippe RN, Ralph SG, Külheim C, Jancsik SI, Bohlmann J (2009) Poplar defense against insects: genome analysis, full-length cDNA cloning and transcriptome and protein analysis of the poplar Kunitz-type protease inhibitor family. New Phytologist 184: 865-884 

  52. Frenkel M, Külheim C1, Jankanpaa HJ, Skogstrom O, Dall’Ostro L, Agren J, Bassi R, Moritz T, Moen J, Jansson S (2009) Improper excess light dissipation in Arabidopsis results in metabolic reprogramming. BMC Plant Biology 9 12 (1: shared first author)

  53. Külheim C, Jansson S (2005) What leads to reduced fitness in non-photochemical quenching mutants? Physiologia Plantarum 125: 202-211 

  54. Ganeteg U, Külheim C1, Andersson J, Jansson S (2004) Is each light-harvesting complex protein important for plant fitness? Plant Physiology 134: 502-509 (1: shared first author)

  55. Külheim C, Ågren J, Jansson S (2002) Rapid regulation of light harvesting and plant fitness in the field. Science 297: 91-93 


Refereed conference papers

  1. Rauschendorfer J*, Lindback E*, Rooney RΔ, Frantti SΔ, Peck VΔ, Cavaleri M, Külheim C (2022) Quercus rubra seedling biomass response related to mean annual temperature conditions of associated provenance. Northern Hardwood Conference 2021; Bridging Science and Management for the Future

  2. Naidoo S, Oates C, Mhoswa L, O’ Neil M, Acosta J, Christie N, Mphahlele M, Payn K, Myburg A, Slippers B, Külheim C (2020) Factors underpinning resistance against the galling pest, Leptocybe invasa in Eucalyptus grandis. Proceedings of the Sixth International Workshop on the Genetics of Host-Parasite Interactions in Forestry

  3. Gurtler S*, Brzeski KE, Külheim C (2019) Developing multiple invertebrate iDNA methodology in the Keweenaw Peninsula, Michigan to monitor mammal communities. Proceedings of the American Fisheries Society & The Wildlife Society 2019 Joint Annual Conference

  4. Tobias P, Guest D, Külheim C, Park RF (2017) Identification of genes involved in resistance to Austropuccinia psidii (myrtle rust) in Syzygium luehmannii (Riberry). Science Protecting Plant Health

  5. Kainer D, Lanfear R, Penalba JV, Foley W, Külheim C (2016) Targeted repeat reduction in whole tree genomes prior to sequencing. Proceedings of the IUFRO Tree Biotechnology 2015 Conference S3:O15

  6. Gunn B, Külheim C, Crisp M, Peakall R, Prebble M, Baudouin L, Olsen KM, Miller J (2012) Genomic studies of the coconut (Cocos nucifera L.). Plant and Animal Genome Conference. 20:P0225

  7. Külheim C, Webb H, Yeoh SH, Wallis IR, Moran GF, Foley WJ (2011) Using the Eucalyptus genome to understand the evolution of plant secondary metabolites in the Myrtaceae. BMC Proceedings 5:O11

  8. Webb H, Külheim C, Lanfear R, Hamill J, Foley WJ (2011) The regulation of quantitative variation of foliar terpenes in medicinal tea tree Melaleuca alternifolia. BMC Proceedings 5:O20

  9. Foley WJ, Moran GF, Keszei A, Külheim C (2009) Chemicogenomics of plants. Integrative and Comparative Biology 49: E57

  10. Jansson S, Andersson J, Ganeteg U, Klimmek F, Külheim C, Boekema E, Dekker J, Horton P, Agren J (2004) Cellular and Molecular Biology Letters 9: 34


Other publications:

  1. Li T, Kainer D*, Foley WJ, Rodrigo AG, Külheim C (2021) The draft genome sequence of Eucalyptus polybractea based on hybrid assembly with Oxford Nanopore and Illumina reads. bioRxiv:

  2. Kainer D, Külheim C (2016) Renewable jet fuel could be growing on Australia’s iconic gum trees. The Conversation (

  3. Külheim C, Hsieh S, Tobias P, Foley WJ (2015) Discovery of genetic resistance markers to Myrtle rust in Myrtaceae. RIRDC (RIRDC report)

  4. Webb H, Padovan A, Külheim C, Foley WJ (2013) Genetic markers for yield improvement in tea tree RIRDC (RIRDC report)

  5. Webb H, Padovan A, Külheim C, Foley WJ (2013) Application of molecular genetics to improvement of yield in oil mallees. RIRDC (RIRDC report)

  6. Külheim C (2010) Applying second-generation sequencing to non-model species. Australian Biochemist 41: 10-13 (invited non-peer reviewed review paper)

  7. Keszei A, Webb H, Külheim C, Foley WJ (2010) Genetic tools for improving tea tree oils RIRDC 10-189 (RIRDC report)

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