Dillon, Natalie L., Zhang, Dapeng, Nauheimer, Lars, Toramo, Elison, Nagalevu, Paitia, Melteras, Marie Vianney, Wallez, Sandrine, Finau, Kuinimeri, Nakidakida, Sefanaia, Lepou, Petelo, and Diczbalis, Yan (2024) Understanding the cocoa genetic resources in the Pacific to assist producers to supply the growing craft market. New Zealand Journal of Crop and Horticultural Science. (In Press)

Zuntini, Alexandre R., Carruthers, Tom, Maurin, Olivier, Bailey, Paul C., Leempoel, Kevin, Brewer, Grace E., Epitawalage, Niroshini, Françoso, Elaine, Gallego-Paramo, Berta, McGinnie, Catherine, Negrão, Raquel, Roy, Shyamali R., Simpson, Lalita, Toledo Romero, Eduardo, Barber, Vanessa M. A., Botigué, Laura, Clarkson, James J., Cowan, Robyn S., Dodsworth, Steven, Johnson, Matthew G., Kim, Jan T., Pokorny, Lisa, Wickett, Norman J., Antar, Guilherme M., DeBolt, Lucinda, Gutierrez, Karime, Hendriks, Kasper P., Hoewener, Alina, Hu, Ai-Qun, Joyce, Elizabeth, Kikuchi, Izai A. B. S., Larridon, Isabel, Larson, Drew A., de Lírio, Elton John, Liu, Jing-Xia, Malakasi, Panagiota, Przelomska, Natalia A. S., Shah, Toral, Viruel, Juan, Allnutt, Theodore R., Ameka, Gabriel K., Andrew, Rose L., Appelhans, Marc S., Arista, Montserrat, Ariza, María Jesús, Arroyo, Juan, Arthan, Watchara, Bachelier, Julien B., Bailey, C. Donovan, Barnes, Helen F., Barrett, Matt, Barrett, Russell L., Bayer, Randall J., Bayly, Michael J., Biffin, Ed, Biggs, Nicky, Birch, Joanne L., Bogarín, Diego, Borosova, Renata, Bowles, Alexander M. C., Boyce, Peter C., Bramley, Gemma L. C., Briggs, Marie, Broadhurst, Linda, Brown, Gillian K., Bruhl, Jeremy J., Bruneau, Anne, Buerki, Sven, Burns, Edie, Byrne, Margaret, Cable, Stuart, Calladine, Ainsley, Callmander, Martin W., Cano, Ángela, Cantrill, David J., Cardinal-McTeague, Warren M., Carlsen, Mónica M., Carruthers, Abigail J. A., de Castro Mateo, Alejandra, Chase, Mark W., Chatrou, Lars W., Cheek, Martin, Chen, Shilin, Christenhusz, Maarten J. M., Christin, Pascal-Antoine, Clements, Mark A., Coffey, Skye C., Conran, John G., Cornejo, Xavier, Couvreur, Thomas L. P., Cowie, Ian D., Csiba, Laszlo, Darbyshire, Iain, Davidse, Gerrit, Davies, Nina M. J., Davis, Aaron P., van Dijk, Kor-jent, Downie, Stephen R., Duretto, Marco F., Duvall, Melvin R., Edwards, Sara L., Eggli, Urs, Erkens, Roy H. J., Escudero, Marcial, de la Estrella, Manuel, Fabriani, Federico, Fay, Michael F., Ferreira, Paola de L., Ficinski, Sarah Z., Fowler, Rachael M., Frisby, Sue, Fu, Lin, Fulcher, Tim, Galbany-Casals, Mercè, Gardner, Elliot M., German, Dmitry A., Giaretta, Augusto, Gibernau, Marc, Gillespie, Lynn J., González, Cynthia C., Goyder, David J., Graham, Sean W., Grall, Aurélie, Green, Laura, Gunn, Bee F., Gutiérrez, Diego G., Hackel, Jan, Haevermans, Thomas, Haigh, Anna, Hall, Jocelyn C., Hall, Tony, Harrison, Melissa, Hatt, Sebastian A., Hidalgo, Oriane, Hodkinson, Trevor R., Holmes, Gareth D., Hopkins, Helen C. F., Jackson, Christopher J., James, Shelley A., Jobson, Richard W., Kadereit, Gudrun, Kahandawala, Imalka M., Kainulainen, Kent, Kato, Masahiro, Kellogg, Elizabeth A., King, Graham J., Klejevskaja, Beata, Klitgaard, Bente B., Klopper, Ronell R., Knapp, Sandra, Koch, Marcus A., Leebens-Mack, James H., Lens, Frederic, Leon, Christine J., Léveillé-Bourret, Étienne, Lewis, Gwilym P., Li, De-Zhu, Li, Lan, Liede-Schumann, Sigrid, Livshultz, Tatyana, Lorence, David, Lu, Meng, Lu-Irving, Patricia, Luber, Jaquelini, Lucas, Eve J., Luján, Manuel, Lum, Mabel, Macfarlane, Terry D., Magdalena, Carlos, Mansano, Vidal F., Masters, Lizo E., Mayo, Simon J., McColl, Kristina, McDonnell, Angela J., McDougall, Andrew E., McLay, Todd G. B., McPherson, Hannah, Meneses, Rosa I., Merckx, Vincent S. F. T., Michelangeli, Fabián A., Mitchell, John D., Monro, Alexandre K., Moore, Michael J., Mueller, Taryn L., Mummenhoff, Klaus, Munzinger, Jérôme, Muriel, Priscilla, Murphy, Daniel J., Nargar, Katharina, Nauheimer, Lars, Nge, Francis J., Nyffeler, Reto, Orejuela, Andrés, Ortiz, Edgardo M., Palazzesi, Luis, Peixoto, Ariane Luna, Pell, Susan K., Pellicer, Jaume, Penneys, Darin S., Perez-Escobar, Oscar A., Persson, Claes, Pignal, Marc, Pillon, Yohan, Pirani, José R., Plunkett, Gregory M., Powell, Robyn F., Prance, Ghillean T., Puglisi, Carmen, Qin, Ming, Rabeler, Richard K., Rees, Paul E. J., Renner, Matthew, Roalson, Eric H., Rodda, Michele, Rogers, Zachary S., Rokni, Saba, Rutishauser, Rolf, de Salas, Miguel F., Schaefer, Hanno, Schley, Rowan J., Schmidt-Lebuhn, Alexander, Shapcott, Alison, Al-Shehbaz, Ihsan, Shepherd, Kelly A., Simmons, Mark P., Simões, André O., Simões, Ana Rita G., Siros, Michelle, Smidt, Eric C., Smith, James F., Snow, Neil, Soltis, Douglas E., Soltis, Pamela S., Soreng, Robert J., Sothers, Cynthia A., Starr, Julian R., Stevens, Peter F., Straub, Shannon C. K., Struwe, Lena, Taylor, Jennifer M., Telford, Ian R. H., Thornhill, Andrew H., Tooth, Ifeanna, Trias-Blasi, Anna, Udovicic, Frank, Utteridge, Timothy M. A., Del Valle, Jose C., Verboom, G. Anthony, Vonow, Helen P., Vorontsova, Maria S., de Vos, Jurriaan M., Al-Wattar, Noor, Waycott, Michelle, Welker, Cassiano A. D., White, Adam J., Wieringa, Jan J., Williamson, Luis T., Wilson, Trevor C., Wong, Sin Yeng, Woods, Lisa A., Woods, Roseina, Worboys, Stuart, Xanthos, Martin, Yang, Ya, Zhang, Yu-Xiao, Zhou, Meng-Yuan, Zmarzty, Sue, Zuloaga, Fernando O., Antonelli, Alexandre, Bellot, Sidonie, Crayn, Darren, Grace, Olwen M., Kersey, Paul J., Leitch, Ilia J., Sauquet, Hervé, Smith, Stephen A., Eiserhardt, Wolf L., Forest, Félix, and Baker, William J. (2024) Phylogenomics and the rise of the angiosperms. Nature, 629. pp. 843-850.

Cooper, Wendy, Zich, Frank, Nauheimer, Lars, Harrison, Melissa, and Crayn, Darren (2024) A revision of Derris and Brachypterum (Leguminosae subfamily Papilionoideae) in Australia. Australian Systematic Botany, 37. SB23030.

Hendriks, Kasper P., Kiefer, Christiane, Al-Shehbaz, Ihsan A., Bailey, C. Donovan, Hooft van Huysduynen, Alex, Nikolov, Lachezar A., Nauheimer, Lars, Zuntini, Alexandre R., German, Dmitry A., Franzke, Andreas, Koch, Marcus A., Lysak, Martin A., Toro-Núñez, Óscar, Özüdoğru, Barış, Invernón, Vanessa R., Walden, Nora, Maurin, Olivier, Hay, Nikolai M., Shushkov, Philip, Mandáková, Terezie, Schranz, M. Eric, Thulin, Mats, Windham, Michael D., Rešetnik, Ivana, Španiel, Stanislav, Ly, Elfy, Pires, J. Chris, Harkess, Alex, Neuffer, Barbara, Vogt, Robert, Bräuchler, Christian, Rainer, Heimo, Janssens, Steven B., Schmull, Michaela, Forrest, Alan, Guggisberg, Alessia, Zmarzty, Sue, Lepschi, Brendan J., Scarlett, Neville, Stauffer, Fred W., Schönberger, Ines, Heenan, Peter, Baker, William J., Forest, Félix, Mummenhoff, Klaus, and Lens, Frederic (2023) Global Brassicaceae phylogeny based on filtering of 1,000-gene dataset. Current Biology, 33 (19). 4052-4068.e6.

Joyce, Elizabeth M., Appelhans, Marc S., Buerki, Sven, Cheek, Martin, de Vos, Jurriaan M., Pirani, José R., Zuntini, Alexandre R., Bachelier, Julien B., Bayly, Michael J., Callmander, Martin W., Devecchi, Marcelo F., Pell, Susan K., Groppo, Milton, Lowry, Porter P., Mitchell, John, Siniscalchi, Carolina M., Munzinger, Jérôme, Orel, Harvey K., Pannell, Caroline M., Nauheimer, Lars, Sauquet, Hervé, Weeks, Andrea, Muellner-Riehl, Alexandra N., Leitch, Ilia J., Maurin, Olivier, Forest, Félix, Nargar, Katharina, Thiele, Kevin R., Baker, William J., and Crayn, Darren M. (2023) Phylogenomic analyses of Sapindales support new family relationships, rapid Mid-Cretaceous Hothouse diversification, and heterogeneous histories of gene duplication. Frontiers in Plant Science, 14. 1063174.

Nargar, Katharina, O'Hara, Kate, Mertin, Allison, Bent, Stephen J., Nauheimer, Lars, Simpson, Lalita, Zimmer, Heidi, Molloy, Brian P.J., and Clements, Mark A. (2022) Evolutionary Relationships and Range Evolution of Greenhood Orchids (Subtribe Pterostylidinae): Insights From Plastid Phylogenomics. Frontiers in Plant Science, 13. 912089.

Bloesch, Zoë, Nauheimer, Lars, Almeida, Thais Elias, Crayn, Darren, and Field, Ashley Raymond (2022) HybPhaser identifies hybrid evolution in Australian Thelypteridaceae. Molecular Phylogenetics and Evolution, 173. 107526.

Yudina, Sophia V., Schelkunov, Mikhail I., Nauheimer, Lars, Crayn, Darren, Chantanaorrapint, Sahut, Hroneš, Michal, Sochor, Michal, Dančák, Martin, Mar, Shek-Shing, Luu, Hong Truong, Nuraliev, Maxim S., and Logacheva, Maria D. (2021) Comparative analysis of plastid genomes in the non-photosynthetic genus Thismia reveals ongoing gene set reduction. Frontiers in Plant Science, 12. 602598.

Nauheimer, Lars, Weigner, Nicholas, Joyce, Elizabeth, Crayn, Darren, Clarke, Charles, and Nargar, Katharina (2021) HybPhaser: a workflow for the detection and phasing of hybrids in target capture data sets. Applications in Plant Sciences, 9 (7). e11441.

McLay, Todd G.B., Birch, Joanne L., Gunn, Bee F., Ning, Weixuan, Tate, Jennifer A., Nauheimer, Lars, Joyce, Elizabeth M., Simpson, Lalita, Schmidt-Lebuhn, Alexander N., Baker, William J., Forest, Félix, and Jackson, Chris J. (2021) New targets acquired: improving locus recovery from the Angiosperms353 probe set. Applications in Plant Sciences, 9 (7). e11420.

Nauheimer, Lars, Cui, Lujing, Clarke, Charles, Crayn, Darren M., Bourke, Greg, and Nargar, Katharina (2019) Genome skimming provides well resolved plastid and nuclear phylogenies, showing patterns of deep reticulate evolution in the tropical carnivorous plant genus Nepenthes (Caryophyllales). Australian Systematic Botany, 32. pp. 243-254.

Cooper, Wendy E., Crayn, Darren M., Zich, Frank A., Miller, Rebecca E., Harrison, Melissa, and Nauheimer, Lars (2019) A review of Austrocallerya and Pongamia (leguminosae subfamily Papilionoideae) in Australia, and the description of a new monotypic genus, Ibatiria. Australian Systematic Botany, 32 (4). pp. 363-384.

Nauheimer, Lars, Schley, Rowan J., Clements, Mark A., Micheneau, Claire, and Nargar, Katharina (2018) Australasian orchid biogeography at continental scale: molecular phylogenetic insights for the Sun Orchids (Thelymitra, Orchidaceae). Molecular Phylogenetics and Evolution, 127. pp. 304-319.

Nargar, Katharina, Molina, Sarah, Wagner, Natascha, Nauheimer, Lars, Micheneau, Claire, and Clements, Mark A. (2018) Australasian orchid diversification in time and space: molecular phylogenetic insights from the beard orchids (Calochilus, Diurideae). Australian Systematic Botany, 31 (6). pp. 389-408.

Joyce, Elizabeth M., Crayn, Darren M., Lam, Vivienne K.Y., Gerelle, Wesley K., Graham, Sean W., and Nauheimer, Lars (2018) Evolution of Geosiris (Iridaceae): historical biogeography and plastid-genome evolution in a genus of non-photosynthetic tropical rainforest herbs disjunct across the Indian Ocean. Australian Systematic Botany, 31 (6). pp. 504-522.

Di Vincenzo, Vanessa, Gruenstaeudl, Michael, Nauheimer, Lars, Wondrafrash, Melaku, Kamau, Peris, Demissew, Sebsebe, and Borsch, Thomas (2018) Evolutionary diversification of the African achyranthoid clade (Amaranthaceae) in the context of sterile flower evolution and epizoochory. Annals of Botany, 122 (1). pp. 69-85.

Gruenstaeudl, Michael, Nauheimer, Lars, and Borsch, Thomas (2017) Plastid genome structure and phylogenomics of Nymphaeales: conserved gene order and new insights into relationships. Plant Systematics and Evolution, 303 (9). pp. 1251-1270.

Muellner-Riehl, Alexandra N., Weeks, Andrea, Clayton, Joshua W., Buerki, Sven, Nauheimer, Lars, Chiang, Yu-Chung, Cody, Sarah, and Pell, Susan K. (2016) Molecular phylogenetics and molecular clock dating of Sapindales based on plastid rbcL, atpB and trnL-trnF DNA sequences. Taxon, 65 (5). pp. 1019-1036.