The University of Queensland

Application of genomics to the study of pathogenicity and development in fusarium

Trail, Frances and Gardiner, Donald M. (2014). Application of genomics to the study of pathogenicity and development in fusarium. Fungal Genomics, 2nd Edition. (pp. 267-300) Berlin, Heidelberg: Springer Berlin Heidelberg. doi: 10.1007/978-3-642-45218-5_11

Fungal toxins of agricultural importance

Johnson, Richard D., Akagi, Yasunori, Fleetwood, Damien J., Gardiner, Donald M., Kodama, Motoichiro, Young, Carolyn A. and Voisey, Christine R. (2013). Fungal toxins of agricultural importance. Agricultural Applications. (pp. 75-113) Heidelberg, Germany: Springer. doi: 10.1007/978-3-642-36821-9_4

A comparison between the role of enniatins and deoxynivalenol in Fusarium virulence on different tissues of common wheat

Beccari, Giovanni, Tini, Francesco, Foroud, Nora A., Ederli, Luisa, Gardiner, Donald M., Benfield, Aurelie H., Harris, Linda J., Sulyok, Michael, Romani, Roberto, Bellezza, Ilaria and Covarelli, Lorenzo (2024). A comparison between the role of enniatins and deoxynivalenol in Fusarium virulence on different tissues of common wheat. BMC Plant Biology, 24 (1) 463. doi: 10.1186/s12870-024-04945-5

Fluorescently Tagged Verticillium dahliae to Understand the Infection Process on Cotton (Gossypium hirsutum) and Weed Plant Species

Chen, Andrew, Morrison, Sabrina, Gregson, Aphrika, Le, Duy P., Urquhart, Andrew S., Smith, Linda J., Aitken, Elizabeth A. B. and Gardiner, Donald M. (2024). Fluorescently Tagged Verticillium dahliae to Understand the Infection Process on Cotton (Gossypium hirsutum) and Weed Plant Species. Pathogens, 13 (6), 442. doi: 10.3390/pathogens13060442

Double-stranded RNA prevents and cures infection by rust fungi

Degnan, Rebecca M., Shuey, Louise S., Radford-Smith, Julian, Gardiner, Donald M., Carroll, Bernard J., Mitter, Neena, McTaggart, Alistair R. and Sawyer, Anne (2023). Double-stranded RNA prevents and cures infection by rust fungi. Communications Biology, 6 (1) 1234, 1-10. doi: 10.1038/s42003-023-05618-z

RNA-based control of fungal pathogens in plants

Mann, Christopher W. G., Sawyer, Anne, Gardiner, Donald M., Mitter, Neena, Carroll, Bernard J. and Eamens, Andrew L. (2023). RNA-based control of fungal pathogens in plants. International Journal of Molecular Sciences, 24 (15) 12391, 1-34. doi: 10.3390/ijms241512391

Starships are active eukaryotic transposable elements mobilized by a new family of tyrosine recombinases

Urquhart, Andrew S., Vogan, Aaron A., Gardiner, Donald M. and Idnurm, Alexander (2023). Starships are active eukaryotic transposable elements mobilized by a new family of tyrosine recombinases. Proceedings of the National Academy of Sciences, 120 (15) e2214521120, e2214521120. doi: 10.1073/pnas.2214521120

A natural fungal gene drive enacts killing via DNA disruption

Urquhart, Andrew S. and Gardiner, Donald M. (2022). A natural fungal gene drive enacts killing via DNA disruption. mBio, 14 (1) e0317322, 1-11. doi: 10.1128/mbio.03173-22

Exogenous double‐stranded RNA inhibits the infection physiology of rust fungi to reduce symptoms in planta

Degnan, Rebecca M., McTaggart, Alistair R., Shuey, Louise S., Pame, Leny Jane S., Smith, Grant R., Gardiner, Donald M., Nock, Volker, Soffe, Rebecca, Sale, Sarah, Garrill, Ashley, Carroll, Bernard J., Mitter, Neena and Sawyer, Anne (2022). Exogenous double‐stranded RNA inhibits the infection physiology of rust fungi to reduce symptoms in planta. Molecular Plant Pathology, 24 (3), 191-207. doi: 10.1111/mpp.13286

BioClay prolongs RNA interference-mediated crop protection against Botrytis cinerea

Niño-Sánchez, Jonatan, Sambasivam, Prabhakaran Thanjavur, Sawyer, Anne, Hamby, Rachael, Chen, Angela, Czislowski, Elizabeth, Li, Peng, Manzie, Narelle, Gardiner, Donald M., Ford, Rebecca, Xu, Zhi Ping, Mitter, Neena and Jin, Hailing (2022). BioClay prolongs RNA interference-mediated crop protection against Botrytis cinerea. Journal of Integrative Plant Biology, 64 (11), 2187-2198. doi: 10.1111/jipb.13353

Transcriptome analysis reveals infection strategies employed by Fusarium graminearum as a root pathogen

Ding, Yi, Gardiner, Donald M. and Kazan, Kemal (2022). Transcriptome analysis reveals infection strategies employed by Fusarium graminearum as a root pathogen. Microbiological Research, 256 126951, 126951. doi: 10.1016/j.micres.2021.126951

Speed dating for enzymes! Finding the perfect phosphopantetheinyl transferase partner for your polyketide synthase

Pedersen, Tobias Bruun, Nielsen, Mikkel Rank, Kristensen, Sebastian Birkedal, Spedtsberg, Eva Mie Lang, Sørensen, Trine, Petersen, Celine, Muff, Jens, Sondergaard, Teis Esben, Nielsen, Kåre Lehmann, Wimmer, Reinhard, Gardiner, Donald Max and Sørensen, Jens Laurids (2022). Speed dating for enzymes! Finding the perfect phosphopantetheinyl transferase partner for your polyketide synthase. Microbial Cell Factories, 21 (1) 9, 9. doi: 10.1186/s12934-021-01734-9

A method for high-throughput image-based antifungal screening

Sabburg, Rosalie, Gregson, Aphrika, Urquhart, Andrew S., Aitken, Elizabeth A.B., Smith, Linda, Thatcher, Louise F. and Gardiner, Donald M. (2021). A method for high-throughput image-based antifungal screening. Journal of Microbiological Methods, 190 106342, 106342. doi: 10.1016/j.mimet.2021.106342

Unlocking inaccessible historical genomes preserved in formalin

Hahn, Erin E., Alexander, Marina R., Grealy, Alicia, Stiller, Jiri, Gardiner, Donald M. and Holleley, Clare E. (2021). Unlocking inaccessible historical genomes preserved in formalin. Molecular Ecology Resources, 22 (6), 2130-2147. doi: 10.1111/1755-0998.13505

Adaptive defence and sensing responses of host plant roots to fungal pathogen attack revealed by transcriptome and metabolome analyses

Ding, Yi, Gardiner, Donald M., Powell, Jonathan J., Colgrave, Michelle L., Park, Robert F. and Kazan, Kemal (2021). Adaptive defence and sensing responses of host plant roots to fungal pathogen attack revealed by transcriptome and metabolome analyses. Plant, Cell and Environment, 44 (12), 3526-3544. doi: 10.1111/pce.14195

Phylogenomic Analysis of a 55.1-kb 19-gene dataset resolves a monophyletic Fusarium that includes the Fusarium solani species complex

Geiser, David M., Al-Hatmi, Abdullah M. S., Aoki, Takayuki, Arie, Tsutomu, Balmas, Virgilio, Barnes, Irene, Bergstrom, Gary C., Bhattacharyya, Madan K., Blomquist, Cheryl L., Bowden, Robert L., Brankovics, Balázs, Brown, Daren W., Burgess, Lester W., Bushley, Kathryn, Busman, Mark, Cano-Lira, José F., Carrillo, Joseph D., Chang, Hao-Xun, Chen, Chi-Yu, Chen, Wanquan, Chilvers, Martin, Chulze, Sofia, Coleman, Jeffrey J., Cuomo, Christina A., de Beer, Z. Wilhelm, de Hoog, G. Sybren, Del Castillo-Múnera, Johanna, Del Ponte, Emerson M., Diéguez-Uribeondo, Javier ... Zhang, Xue (2021). Phylogenomic Analysis of a 55.1-kb 19-gene dataset resolves a monophyletic Fusarium that includes the Fusarium solani species complex. Phytopathology, 111 (7), 1-16. doi: 10.1094/phyto-08-20-0330-le

A conserved Zn2Cys6 transcription factor, identified in a spontaneous mutant from in vitro passaging, is involved in pathogenicity of the blackleg fungus Leptosphaeria maculans

Chambers, Kylie R., Van de Wouw, Angela P., Gardiner, Donald M., Elliott, Candace E. and Idnurm, Alexander (2021). A conserved Zn2Cys6 transcription factor, identified in a spontaneous mutant from in vitro passaging, is involved in pathogenicity of the blackleg fungus Leptosphaeria maculans. Fungal Biology, 125 (7), 541-550. doi: 10.1016/j.funbio.2021.02.002

Identification of putative virulence genes by DNA methylation studies in the cereal pathogen Fusarium graminearum

Tini, Francesco, Beccari, Giovanni, Marconi, Gianpiero, Porceddu, Andrea, Sulyok, Micheal, Gardiner, Donald M., Albertini, Emidio and Covarelli, Lorenzo (2021). Identification of putative virulence genes by DNA methylation studies in the cereal pathogen Fusarium graminearum. Cells, 10 (5) 1192, 1-19. doi: 10.3390/cells10051192

Genetic diversity of Australian Fusarium pseudograminearum populations causing crown rot in wheat

Khudhair, Mohammed, Obanor, F., Kazan, K., Gardiner, D. M., Aitken, E., McKay, A., Giblot-Ducray, D., Simpfendorfer, S. and Thatcher, L. F. (2021). Genetic diversity of Australian Fusarium pseudograminearum populations causing crown rot in wheat. European Journal of Plant Pathology, 159 (4), 741-753. doi: 10.1007/s10658-020-02198-0

Map-based cloning identifies velvet A as a critical component of virulence in Fusarium pseudograminearum during infection of wheat heads

Gardiner, Donald M., Rusu, Anca, Benfield, Aurelie H. and Kazan, Kemal (2021). Map-based cloning identifies velvet A as a critical component of virulence in Fusarium pseudograminearum during infection of wheat heads. Fungal Biology, 125 (3), 191-200. doi: 10.1016/j.funbio.2020.10.012

Fungicides may have differential efficacies towards the main causal agents of Fusarium head blight of wheat

Tini, Francesco, Beccari, Giovanni, Onofri, Andrea, Ciavatta, Emiliano, Gardiner, Donald M. and Covarelli, Lorenzo (2020). Fungicides may have differential efficacies towards the main causal agents of Fusarium head blight of wheat. Pest Management Science, 76 (11), 3738-3748. doi: 10.1002/ps.5923

Ribosome profiling in plants: what is not lost in translation?

Kage, Udaykumar, Powell, Jonathan J., Gardiner, Donald M. and Kazan, Kemal (2020). Ribosome profiling in plants: what is not lost in translation?. Journal of Experimental Botany, 71 (18), 5323-5332. doi: 10.1093/jxb/eraa227

Can natural gene drives be part of future fungal pathogen control strategies in plants?

Gardiner, Donald M., Rusu, Anca, Barrett, Luke, Hunter, Gavin C. and Kazan, Kemal (2020). Can natural gene drives be part of future fungal pathogen control strategies in plants?. New Phytologist, 228 (4) nph.16779, 1431-1439. doi: 10.1111/nph.16779

Erratum: Regulators of nitric oxide signaling triggered by host perception in a plant pathogen (Proceedings of the National Academy of Sciences of the United States of America(2020)117(11147-11157)Doi: 10.1073/pnas.1918977117)

Ding, Yi, Gardiner, Donald M., Xiao, Di and Kazan, Kemal (2020). Erratum: Regulators of nitric oxide signaling triggered by host perception in a plant pathogen (Proceedings of the National Academy of Sciences of the United States of America(2020)117(11147-11157)Doi: 10.1073/pnas.1918977117). Proceedings of the National Academy of Sciences of the United States of America, 117 (27). doi: 10.1073/pnas.2010924117

Regulators of nitric oxide signaling triggered by host perception in a plant pathogen

Ding, Yi, Gardiner, Donald M., Xiao, Di and Kazan, Kemal (2020). Regulators of nitric oxide signaling triggered by host perception in a plant pathogen. Proceedings of the National Academy of Sciences, 117 (20) 201918977, 11147-11157. doi: 10.1073/pnas.1918977117

Gene technologies in weed management: a technical feasibility analysis

Kumaran, Nagalingam, Choudhary, Anupma, Legros, Mathieu, Sheppard, Andy W., Barrett, Luke G., Gardiner, Donald M. and Raghu, Sathyamurthy (2020). Gene technologies in weed management: a technical feasibility analysis. Current Opinion in Insect Science, 38, 6-14. doi: 10.1016/j.cois.2019.12.003

Fusaristatin A production negatively affects the growth and aggressiveness of the wheat pathogen Fusarium pseudograminearum

Khudhair, Mohammed, Kazan, Kemal, Thatcher, Louise F., Obanor, Friday, Rusu, Anca, Sørensen, Jens L., Wollenberg, Rasmus D., McKay, Alan, Giblot-Ducray, Danièle, Simpfendorfer, Steven, Aitken, Elizabeth and Gardiner, Donald M. (2020). Fusaristatin A production negatively affects the growth and aggressiveness of the wheat pathogen Fusarium pseudograminearum. Fungal Genetics and Biology, 136 103314, 1-9. doi: 10.1016/j.fgb.2019.103314

Heterologous expression of intact biosynthetic gene clusters in Fusarium graminearum

Nielsen, Mikkel Rank, Wollenberg, Rasmus Dam, Westphal, Klaus Ringsborg, Sondergaard, Teis Esben, Wimmer, Reinhard, Gardiner, Donald Max and Sørensen, Jens Laurids (2019). Heterologous expression of intact biosynthetic gene clusters in Fusarium graminearum. Fungal Genetics and Biology, 132 103248, 1-10. doi: 10.1016/j.fgb.2019.103248

Gene drives in plants: Opportunities and challenges for weed control and engineered resilience

Barrett, Luke G., Legros, Mathieu, Kumaran, Nagalingam, Glassop, Donna, Raghu, S. and Gardiner, Donald M. (2019). Gene drives in plants: Opportunities and challenges for weed control and engineered resilience. Proceedings of the Royal Society B: Biological Sciences, 286 (1911) 20191515, 20191515. doi: 10.1098/rspb.2019.1515

Nanoscale enrichment of the cytosolic enzyme trichodiene synthase near reorganized endoplasmic reticulum in Fusarium graminearum

Boenisch, Marike J., Blum, Ailisa, Broz, Karen L., Gardiner, Donald M. and Kistler, H. Corby (2019). Nanoscale enrichment of the cytosolic enzyme trichodiene synthase near reorganized endoplasmic reticulum in Fusarium graminearum. Fungal Genetics and Biology, 124, 73-77. doi: 10.1016/j.fgb.2018.12.008

Regulation of a novel Fusarium cytokinin in Fusarium pseudograminearum

Blum, Ailisa, Benfield, Aurélie H., Sørensen, Jens L., Nielsen, Mikkel R., Bachleitner, Simone, Studt, Lena, Beccari, Giovanni, Covarelli, Lorenzo, Batley, Jacqueline and Gardiner, Donald M. (2019). Regulation of a novel Fusarium cytokinin in Fusarium pseudograminearum. Fungal Biology, 123 (3), 255-266. doi: 10.1016/j.funbio.2018.12.009

Comparative analysis of genetic structures and aggressiveness of Fusarium pseudograminearum populations from two surveys undertaken in 2008 and 2015 at two sites in the wheat belt of Western Australia

Khudhair, M., Thatcher, L. F., Gardiner, D. M., Kazan, K., Roper, M. M., Aitken, E. and Obanor, F. (2019). Comparative analysis of genetic structures and aggressiveness of Fusarium pseudograminearum populations from two surveys undertaken in 2008 and 2015 at two sites in the wheat belt of Western Australia. Plant Pathology, 68 (7) ppa.13056, 1337-1349. doi: 10.1111/ppa.13056

There it is! Fusarium pseudograminearum did not lose the fusaristatin gene cluster after all

Wollenberg, Rasmus Dam, Sondergaard, Teis Esben, Nielsen, Mikkel Rank, Knutsson, Simon, Pedersen, Tobias Bruun, Westphal, Klaus Ringsborg, Wimmer, Reinhard, Gardiner, Donald Max and Sørensen, Jens Laurids (2019). There it is! Fusarium pseudograminearum did not lose the fusaristatin gene cluster after all. Fungal Biology, 123 (1), 10-17. doi: 10.1016/j.funbio.2018.10.004

BdACT2a encodes an agmatine coumaroyl transferase required for pathogen defence in Brachypodium distachyon

Carere, Jason, Powell, Jonathan, Fitzgerald, Timothy, Kazan, Kemal and Gardiner, Donald M. (2018). BdACT2a encodes an agmatine coumaroyl transferase required for pathogen defence in Brachypodium distachyon. Physiological and Molecular Plant Pathology, 104, 69-76. doi: 10.1016/j.pmpp.2018.09.003

Genome sequences of three isolates of Fusarium verticillioides

Gardiner, Donald M. (2018). Genome sequences of three isolates of Fusarium verticillioides. Microbiology Resource Announcements, 7 (8) e00918-18, 1-3. doi: 10.1128/MRA.00918-18

The cereal pathogen Fusarium pseudograminearum produces a new class of active cytokinins during infection

Sørensen, Jens Laurids, Benfield, Aurelie H., Wollenberg, Rasmus Dam, Westphal, Klaus, Wimmer, Reinhard, Nielsen, Mikkel Rank, Nielsen, Kristian Fog, Carere, Jason, Covarelli, Lorenzo, Beccari, Giovanni, Powell, Jonathan, Yamashino, Takafumi, Kogler, Herbert, Sondergaard, Teis Esben and Gardiner, Donald Max (2018). The cereal pathogen Fusarium pseudograminearum produces a new class of active cytokinins during infection. Molecular Plant Pathology, 19 (5), 1140-1154. doi: 10.1111/mpp.12593

A multiple near isogenic line (multi-NIL) RNA-seq approach to identify candidate genes underpinning QTL

Habib, Ahsan, Powell, Jonathan J., Stiller, Jiri, Liu, Miao, Shabala, Sergey, Zhou, Meixue, Gardiner, Donald M. and Liu, Chunji (2018). A multiple near isogenic line (multi-NIL) RNA-seq approach to identify candidate genes underpinning QTL. Theoretical and Applied Genetics, 131 (3), 613-624. doi: 10.1007/s00122-017-3023-0

Transcriptomics of cereal-Fusarium graminearum interactions: what we have learned so far

Kazan, Kemal and Gardiner, Donald M (2018). Transcriptomics of cereal-Fusarium graminearum interactions: what we have learned so far. Molecular Plant Pathology, 19 (3), 764-778. doi: 10.1111/mpp.12561

Fusarium crown rot caused by Fusarium pseudograminearum in cereal crops: recent progress and future prospects

Kazan, Kemal and Gardiner, Donald M. (2018). Fusarium crown rot caused by Fusarium pseudograminearum in cereal crops: recent progress and future prospects. Molecular Plant Pathology, 19 (7), 1547-1562. doi: 10.1111/mpp.12639

Selection is required for efficient Cas9-mediated genome editing in Fusarium graminearum

Gardiner, Donald M. and Kazan, Kemal (2018). Selection is required for efficient Cas9-mediated genome editing in Fusarium graminearum. Fungal Biology, 122 (2-3), 131-137. doi: 10.1016/j.funbio.2017.11.006

A high-resolution genetic map of the cereal crown rot pathogen Fusarium pseudograminearum provides a near-complete genome assembly

Gardiner, Donald M., Benfield, Aurelie H., Stiller, Jiri, Stephen, Stuart, Aitken, Karen, Liu, Chunji and Kazan, Kemal (2018). A high-resolution genetic map of the cereal crown rot pathogen Fusarium pseudograminearum provides a near-complete genome assembly. Molecular Plant Pathology, 19 (1), 217-226. doi: 10.1111/mpp.12519

Transcriptome analysis of Brachypodium during fungal pathogen infection reveals both shared and distinct defense responses with wheat

Powell, Jonathan J., Carere, Jason, Sablok, Gaurav, Fitzgerald, Timothy L., Stiller, Jiri, Colgrave, Michelle L., Gardiner, Donald M., Manners, John M., Vogel, John P., Henry, Robert J. and Kazan, Kemal (2017). Transcriptome analysis of Brachypodium during fungal pathogen infection reveals both shared and distinct defense responses with wheat. Scientific Reports, 7 (1) 17212, 1-14. doi: 10.1038/s41598-017-17454-3

Chrysogine biosynthesis is mediated by a two-module nonribosomal peptide synthetase

Wollenberg, Rasmus Dam, Saei, Wagma, Westphal, Klaus Ringsborg, Klitgaard, Carina Sloth, Nielsen, Kare Lehmann, Lysøe, Erik, Gardiner, Donald Max, Wimmer, Reinhard, Sondergaard, Teis Esben and Sørensen, Jens Laurids (2017). Chrysogine biosynthesis is mediated by a two-module nonribosomal peptide synthetase. Journal of Natural Products, 80 (7), 2131-2135. doi: 10.1021/acs.jnatprod.6b00822

Targeting pathogen sterols: defence and counterdefence?

Kazan, Kemal and Gardiner, Donald M. (2017). Targeting pathogen sterols: defence and counterdefence?. PLoS Pathogens, 13 (5) e1006297, 1-7. doi: 10.1371/journal.ppat.1006297

The defence-associated transcriptome of hexaploid wheat displays homoeolog expression and induction bias

Powell, Jonathan J. , Fitzgerald, Timothy L. , Stiller, Jiri, Berkman, Paul J. , Gardiner, Donald M. , Manners, John M. , Henry, Robert J. and Kazan, Kemal (2017). The defence-associated transcriptome of hexaploid wheat displays homoeolog expression and induction bias. Plant Biotechnology Journal, 15 (4), 533-543. doi: 10.1111/pbi.12651

A tomatinase-like enzyme acts as a virulence factor in the wheat pathogen Fusarium graminearum

Carere, Jason, Benfield, Aurélie H., Ollivier, Mélodie, Liu, Chunji J., Kazan, Kemal and Gardiner, Donald M. (2017). A tomatinase-like enzyme acts as a virulence factor in the wheat pathogen Fusarium graminearum. Fungal Genetics and Biology, 100, 33-41. doi: 10.1016/j.fgb.2017.01.007

The Fusarium crown rot pathogen Fusarium pseudograminearum triggers a suite of transcriptional and metabolic changes in bread wheat (Triticum aestivum L.)

Powell, Jonathan J., Carere, Jason, Fitzgerald, Timothy L., Stiller, Jiri, Covarelli, Lorenzo, Xu, Qian, Gubler, Frank, Colgrave, Michelle L., Gardiner, Donald M., Manners, John M., Henry, Robert J. and Kazan, Kemal (2017). The Fusarium crown rot pathogen Fusarium pseudograminearum triggers a suite of transcriptional and metabolic changes in bread wheat (Triticum aestivum L.). Annals of Botany, 119 (5), 853-867. doi: 10.1093/aob/mcw207

Mycotoxigenic potentials of Fusarium species in various culture matrices revealed by mycotoxin profiling

Shi, Wen, Tan, Yanglan, Wang, Shuangxia, Gardiner, Donald M., De Saeger, Sarah, Liao, Yucai, Wang, Cheng, Fan, Yingying, Wang, Zhouping and Wu, Aibo (2017). Mycotoxigenic potentials of Fusarium species in various culture matrices revealed by mycotoxin profiling. Toxins, 9 (1) 6, 1-15. doi: 10.3390/toxins9010006

Enzyme-driven metabolomic screening: a proof-of-principle method for discovery of plant defence compounds targeted by pathogens

Carere, Jason, Colgrave, Michelle L., Stiller, Jiri, Liu, Chunji, Manners, John M., Kazan, Kemal and Gardiner, Donald M. (2016). Enzyme-driven metabolomic screening: a proof-of-principle method for discovery of plant defence compounds targeted by pathogens. New Phytologist, 212 (3), 770-779. doi: 10.1111/nph.14067

High-throughput FACS-based mutant screen identifies a gain-of-function allele of the Fusarium graminearum adenylyl cyclase causing deoxynivalenol over-production

Blum, Ailisa, Benfield, Aurelie H., Stiller, Jiri, Kazan, Kemal, Batley, Jacqueline and Gardiner, Donald M. (2016). High-throughput FACS-based mutant screen identifies a gain-of-function allele of the Fusarium graminearum adenylyl cyclase causing deoxynivalenol over-production. Fungal Genetics and Biology, 90, 1-11. doi: 10.1016/j.fgb.2016.02.005

EffectorP: Predicting fungal effector proteins from secretomes using machine learning

Sperschneider, Jana, Gardiner, Donald M., Dodds, Peter N., Tini, Francesco, Covarelli, Lorenzo, Singh, Karam B., Manners, John M. and Taylor, Jennifer M. (2016). EffectorP: Predicting fungal effector proteins from secretomes using machine learning. New Phytologist, 210 (2), 743-761. doi: 10.1111/nph.13794

The Fdb3 transcription factor of the Fusarium Detoxification of Benzoxazolinone gene cluster is required for MBOA but not BOA degradation in Fusarium pseudograminearum

Kettle, Andrew J., Carere, Jason, Batley, Jacqueline, Manners, John M., Kazan, Kemal and Gardiner, Donald M. (2016). The Fdb3 transcription factor of the Fusarium Detoxification of Benzoxazolinone gene cluster is required for MBOA but not BOA degradation in Fusarium pseudograminearum. Fungal Genetics and Biology, 88, 44-53. doi: 10.1016/j.fgb.2016.01.015

A gamma-lactamase from cereal infecting Fusarium spp. catalyses the first step in the degradation of the benzoxazolinone class of phytoalexins

Kettle, Andrew J., Carere, Jason, Batley, Jacqueline, Benfield, Aurelie H., Manners, John M., Kazan, Kemal and Gardiner, Donald M. (2015). A gamma-lactamase from cereal infecting Fusarium spp. catalyses the first step in the degradation of the benzoxazolinone class of phytoalexins. Fungal Genetics and Biology, 83, 1-9. doi: 10.1016/j.fgb.2015.08.005

Genome-wide analysis in three Fusarium pathogens identifies rapidly evolving chromosomes and genes associated with pathogenicity

Sperschneider, Jana, Gardiner, Donald M., Thatcher, Louise F., Lyons, Rebecca, Singh, Karam B., Manners, John M. and Taylor, Jennifer M. (2015). Genome-wide analysis in three Fusarium pathogens identifies rapidly evolving chromosomes and genes associated with pathogenicity. Genome Biology and Evolution, 7 (6), 1613-1627. doi: 10.1093/gbe/evv092

Degradation of the benzoxazolinone class of phytoalexins is important for virulence of Fusarium pseudograminearum towards wheat

Kettle, Andrew J., Batley, Jacqueline, Benfield, Aurelie H., Manners, John M., Kazan, Kemal and Gardiner, Donald M. (2015). Degradation of the benzoxazolinone class of phytoalexins is important for virulence of Fusarium pseudograminearum towards wheat. Molecular Plant Pathology, 16 (9), 946-962. doi: 10.1111/mpp.12250

Brachypodium as an emerging model for cereal-pathogen interactions

Fitzgerald, Timothy L., Powell, Jonathan J., Schneebeli, Katharina, Hsia, M. Mandy, Gardiner, Donald M., Bragg, Jennifer N., McIntyre, C. Lynne, Manners, John M., Ayliffe, Mick, Watt, Michelle, Vogel, John P., Henry, Robert J. and Kazan, Kemal (2015). Brachypodium as an emerging model for cereal-pathogen interactions. Annals of Botany, 115 (5), 717-731. doi: 10.1093/aob/mcv010

Advances and Challenges in Computational Prediction of Effectors from Plant Pathogenic Fungi

Sperschneider, Jana, Dodds, Peter N., Gardiner, Donald M., Manners, John M., Singh, Karam B. and Taylor, Jennifer M. (2015). Advances and Challenges in Computational Prediction of Effectors from Plant Pathogenic Fungi. PLoS Pathogens, 11 (5) e1004806. doi: 10.1371/journal.ppat.1004806

Identification of the biosynthetic gene clusters for the lipopeptides fusaristatin A and W493 B in Fusarium graminearum and F. pseudograminearum

Sørensen, Jens Laurids, Sondergaard, Teis Esben, Covarelli, Lorenzo, Fuertes, Patricia Romans, Hansen, Frederik Teilfeldt, Frandsen, Rasmus John Normand, Saei, Wagma, Lukassen, Mie Bech, Wimmer, Reinhard, Nielsen, Kristian Fog, Gardiner, Donald Max and Giese, Henriette (2014). Identification of the biosynthetic gene clusters for the lipopeptides fusaristatin A and W493 B in Fusarium graminearum and F. pseudograminearum. Journal of Natural Products, 77 (12), 2619-2625. doi: 10.1021/np500436r

Transcriptome and allele specificity associated with a 3BL locus for fusarium crown rot resistance in bread wheat

Ma, Jian, Stiller, Jiri, Zhao, Qiang, Feng, Qi, Cavanagh, Colin, Wang, Penghao, Gardiner, Donald, Choulet, Frédéric, Feuillet, Catherine, Zheng, You-Liang, Wei, Yuming, Yan, Guijun, Han, Bin, Manners, John M. and Liu, Chunji (2014). Transcriptome and allele specificity associated with a 3BL locus for fusarium crown rot resistance in bread wheat. PLoS ONE, 9 (11) e113309. doi: 10.1371/journal.pone.0113309

Diversifying selection in the wheat stem rust fungus acts predominantly on pathogen-associated gene families and reveals candidate effectors

Sperschneider, Jana, Ying, Hua, Dodds, Peter N., Gardiner, Donald M., Upadhyaya, Narayana M., Singh, Karam B., Manners, John M. and Taylor, Jennifer M. (2014). Diversifying selection in the wheat stem rust fungus acts predominantly on pathogen-associated gene families and reveals candidate effectors. Frontiers in Plant Science, 5 (Sep) 372. doi: 10.3389/fpls.2014.00372

Genomic analysis of Xanthomonas translucens pathogenic on wheat and barley reveals cross-kingdom gene transfer events and diverse protein delivery systems

Gardiner, Donald M., Upadhyaya, Narayana M., Stiller, Jiri, Ellis, Jeff G., Dodds, Peter N., Kazan, Kemal and Manners, John M. (2014). Genomic analysis of Xanthomonas translucens pathogenic on wheat and barley reveals cross-kingdom gene transfer events and diverse protein delivery systems. PLoS ONE, 9 (1) e84995. doi: 10.1371/journal.pone.0084995

Genome sequence of Fusarium graminearum isolate CS3005

Gardiner, Donald M., Stiller, Jiri and Kazan, Kemal (2014). Genome sequence of Fusarium graminearum isolate CS3005. Genome Announcements, 2 (2) e00227-14. doi: 10.1128/genomeA.00227-14

An ABC pleiotropic drug resistance transporter of Fusarium graminearum with a role in crown and root diseases of wheat

Gardiner, Donald M., Stephens, Amber E., Munn, Alan L. and Manners, John M. (2013). An ABC pleiotropic drug resistance transporter of Fusarium graminearum with a role in crown and root diseases of wheat. FEMS Microbiology Letters, 348 (1), 36-45. doi: 10.1111/1574-6968.12240

Coverage and consistency: Bioinformatics aspects of the analysis of multirun iTRAQ experiments with wheat leaves

Pascovici, Dana, Gardiner, Donald M., Song, Xiaomin, Breen, Edmond, Solomon, Peter S., Keighley, Tim and Molloy, Mark P. (2013). Coverage and consistency: Bioinformatics aspects of the analysis of multirun iTRAQ experiments with wheat leaves. Journal of Proteome Research, 12 (11), 4870-4881. doi: 10.1021/pr400531y

Cross-kingdom gene transfer facilitates the evolution of virulence in fungal pathogens

Gardiner, Donald M., Kazan, Kemal and Manners, John M. (2013). Cross-kingdom gene transfer facilitates the evolution of virulence in fungal pathogens. Plant Science, 210, 151-158. doi: 10.1016/j.plantsci.2013.06.002

Fusarium pathogenomics

Ma, Li-Jun, Geiser, David M., Proctor, Robert H., Rooney, Alejandro P., O'Donnell, Kerry, Trail, Frances, Gardiner, Donald M., Manners, John M. and Kazan, Kemal (2013). Fusarium pathogenomics. Annual Review of Microbiology, 67 (1), 399-416. doi: 10.1146/annurev-micro-092412-155650

A comparative hidden Markov model analysis pipeline identifies proteins characteristic of cereal-infecting fungi

Sperschneider, Jana, Gardiner, Donald M., Taylor, Jennifer M., Hane, James K., Singh, Karam B. and Manners, John M. (2013). A comparative hidden Markov model analysis pipeline identifies proteins characteristic of cereal-infecting fungi. BMC Genomics, 14 (1) 807. doi: 10.1186/1471-2164-14-807

Genome sequences of Pseudomonas spp. isolated from cereal crops

Gardiner, Donald M., Stiller, Jiri, Covarelli, Lorenzo, Lindeberg, Magdalen, Shivas, Roger G. and Manners, John M. (2013). Genome sequences of Pseudomonas spp. isolated from cereal crops. Genome Announcements, 1 (3) e00209-13. doi: 10.1128/genomeA.00209-13

Genome sequences of six wheat-infecting Fusarium species isolates

Moolhuijzen, Paula M., Manners, John M., Wilcox, Stephen A., Bellgard, Matthew I. and Gardiner, Donald M. (2013). Genome sequences of six wheat-infecting Fusarium species isolates. Genome Announcements, 1 (5) e00670-13. doi: 10.1128/genomeA.e00670-13

Comparative pathogenomics reveals horizontally acquired novel virulence genes in fungi infecting cereal hosts

Gardiner, Donald M., McDonald, Megan C., Covarelli, Lorenzo, Solomon, Peter S., Rusu, Anca G., Marshall, Mhairi, Kazan, Kemal, Chakraborty, Sukumar, McDonald, Bruce A. and Manners, John M. (2012). Comparative pathogenomics reveals horizontally acquired novel virulence genes in fungi infecting cereal hosts. Plos Pathogens, 8 (9) e1002952, e1002952.1-e1002952.22. doi: 10.1371/journal.ppat.1002952

On the trail of a cereal killer: Recent advances in Fusarium graminearum pathogenomics and host resistance

Kazan, Kemal, Gardiner, Donald M. and Manners, John M. (2012). On the trail of a cereal killer: Recent advances in Fusarium graminearum pathogenomics and host resistance. Molecular Plant Pathology, 13 (4), 399-413. doi: 10.1111/j.1364-3703.2011.00762.x

A highly conserved effector in Fusarium oxysporum is required for full virulence on Arabidopsis

Thatcher, Louise F., Gardiner, Donald M., Kazan, Kemal and Manners, John M. (2012). A highly conserved effector in Fusarium oxysporum is required for full virulence on Arabidopsis. Molecular Plant-Microbe Interactions, 25 (2), 180-190. doi: 10.1094/MPMI-08-11-0212

Auxin signaling and transport promote susceptibility to the root infecting fungal pathogen Fusarium oxysporum in Arabidopsis

Kidd, Brendan N., Kadoo, Narendra Y., Dombrecht, Bruno, Tekeoglu, Mücella, Gardiner, Donald M., Thatcher, Louise F., Aitken, Elizabeth A. B., Schenk, Peer M., Manners, John M. and Kazan, Kemal (2011). Auxin signaling and transport promote susceptibility to the root infecting fungal pathogen Fusarium oxysporum in Arabidopsis. Molecular Plant Microbe Interactions, 24 (6), 733-748. doi: 10.1094/MPMI-08-10-0194

Early activation of wheat polyamine biosynthesis during Fusarium head blight implicates putrescine as an inducer of trichothecene mycotoxin production

Gardiner, Donald M., Kazan, Kemal, Praud, Sebastien, Torney, Francois J., Rusu, Anca and Manners, John M. (2010). Early activation of wheat polyamine biosynthesis during Fusarium head blight implicates putrescine as an inducer of trichothecene mycotoxin production. BMC Plant Biology, 10 289. doi: 10.1186/1471-2229-10-289

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

Ma, Li-Jun, Van Der Does, H. Charlotte, Borkovich, Katherine A., Coleman, Jeffrey J., Daboussi, Marie-Josée, Di Pietro, Antonio, Dufresne, Marie, Freitag, Michael, Grabherr, Manfred, Henrissat, Bernard, Houterman, Petra M., Kang, Seogchan, Shim, Won-Bo, Woloshuk, Charles, Xie, Xiaohui, Xu, Jin-Rong, Antoniw, John, Baker, Scott E., Bluhm, Burton H., Breakspear, Andrew, Brown, Daren W., Butchko, Robert A. E., Chapman, Sinead, Coulson, Richard, Coutinho, Pedro M., Danchin, Etienne G. J., Diener, Andrew, Gale, Liane R., Gardiner, Donald M. ... Rep, Martijn (2010). Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature, 464 (7287), 367-373. doi: 10.1038/nature08850

Novel genes of Fusarium graminearum that negatively regulate deoxynivalenol production and virulence

Gardiner, Donald M., Kazan, Kemal and Manners, John M. (2009). Novel genes of Fusarium graminearum that negatively regulate deoxynivalenol production and virulence. Molecular Plant-Microbe Interactions, 22 (12), 1588-1600. doi: 10.1094/MPMI-22-12-1588

Low pH regulates the production of deoxynivalenol by Fusarium graminearum

Gardiner, Donald M., Osborne, Sheree, Kazan, Kemal and Manners, John M. (2009). Low pH regulates the production of deoxynivalenol by Fusarium graminearum. Microbiology, 155 (9), 3149-3156. doi: 10.1099/mic.0.029546-0

Nutrient profiling reveals potent inducers of trichothecene biosynthesis in Fusarium graminearum

Gardiner, Donald M., Kazan, Kemal and Manners, John M. (2009). Nutrient profiling reveals potent inducers of trichothecene biosynthesis in Fusarium graminearum. Fungal Genetics and Biology, 46 (8), 604-613. doi: 10.1016/j.fgb.2009.04.004

Phases of infection and gene expression of fusarium graminearum during crown rot disease of wheat

Stephens, Amber E., Gardiner, Donald M., White, Rosemary G., Munn, Alan L. and Manners, John M. (2008). Phases of infection and gene expression of fusarium graminearum during crown rot disease of wheat. Molecular Plant-microbe Interactions, 21 (12), 1571-1581. doi: 10.1094/MPMI-21-12-1571

The Fusarium mycotoxin deoxynivalenol elicits hydrogen peroxide production, programmed cell death and defence responses in wheat

Desmond, Olivia J., Manners, John M., Stephens, Amber E., Maclean, Donald J., Schenk, Peer M., Gardiner, Donald M., Munn, Alan L. and Kazan, Kemal (2008). The Fusarium mycotoxin deoxynivalenol elicits hydrogen peroxide production, programmed cell death and defence responses in wheat. Molecular Plant Pathology, 9 (4), 435-445. doi: 10.1111/J.1364-3703.2008.00475.X

A Zn(II)2Cys6 DNA binding protein regulates the sirodesmin PL biosynthetic gene cluster in Leptosphaeria maculans

Fox, Ellen M., Gardiner, Donald M., Keller, Nancy P. and Howlett, Barbara J. (2008). A Zn(II)2Cys6 DNA binding protein regulates the sirodesmin PL biosynthetic gene cluster in Leptosphaeria maculans. Fungal Genetics and Biology, 45 (5), 671-682. doi: 10.1016/j.fgb.2007.10.005

Towards defining the nuclear proteome

Fink, J. Lynn, Karunaratne, Seetha, Mittal, Amit, Gardiner, Donald M., Hamilton, Nicholas, Mahony, Donna, Kai, Chikatoshi, Suzuki, Harukazu, Hayashizaki, Yosihide and Teasdale, Rohan D. (2008). Towards defining the nuclear proteome. Genome Biology, 9 (1) R15, 1-15. doi: 10.1186/gb-2008-9-1-r15

Origin and distribution of epipolythiodioxopiperazine (ETP) gene clusters in filamentous ascomycetes

Patron, Nicola J., Waller, Ross F., Cozijnsen, Anton J., Straney, David C., Gardiner, Donald M., Nierman, William C. and Howlett, Barbara J. (2007). Origin and distribution of epipolythiodioxopiperazine (ETP) gene clusters in filamentous ascomycetes. BMC Evolutionary Biology, 7 (1) 174. doi: 10.1186/1471-2148-7-174

Production of the toxin sirodesmin PL by Leptosphaeria maculans during infection of Brassica napus

Elliott, Candace E., Gardiner, Donald M., Thomas, Georgina, Cozijnsen, Anton, Van De Wouw, Angela and Howlett, Barbara J. (2007). Production of the toxin sirodesmin PL by Leptosphaeria maculans during infection of Brassica napus. Molecular Plant Pathology, 8 (6), 791-802. doi: 10.1111/j.1364-3703.2007.00433.x

The M flax rust resistance pre-mRNA is alternatively spliced and contains a complex upstream untranslated region

Schmidt, Simon, Lombardi, Maria, Gardiner, Donald M., Ayliffe, Michael and Anderson, Peter A. (2007). The M flax rust resistance pre-mRNA is alternatively spliced and contains a complex upstream untranslated region. Theoretical and Applied Genetics, 115 (3), 373-382. doi: 10.1007/s00122-007-0571-8

A role for the mycotoxin deoxynivalenol in stem colonisation during crown rot disease of wheat caused by Fusarium graminearum and Fusarium pseudograminearum

Mudge, Agnieszka M., Dill-Macky, Ruth, Dong, Yanhong, Gardiner, Donald M., White, Rosemary G. and Manners. John M. (2006). A role for the mycotoxin deoxynivalenol in stem colonisation during crown rot disease of wheat caused by Fusarium graminearum and Fusarium pseudograminearum. Physiological and Molecular Plant Pathology, 69 (1-3), 73-85. doi: 10.1016/j.pmpp.2007.01.003

Bioinformatic and expression analysis of the putative gliotoxin biosynthetic gene cluster of Aspergillus fumigatus

Gardiner, Donald M. and Howlett, Barbara J. (2005). Bioinformatic and expression analysis of the putative gliotoxin biosynthetic gene cluster of Aspergillus fumigatus. FEMS Microbiology Letters, 248 (2), 241-248. doi: 10.1016/j.femsle.2005.05.046

The epipolythiodioxopiperazine (ETP) class of fungal toxins: Distribution, mode of action, functions and biosynthesis

Gardiner, D.M., Waring, P. and Howlett, B.J. (2005). The epipolythiodioxopiperazine (ETP) class of fungal toxins: Distribution, mode of action, functions and biosynthesis. Microbiology, 151 (4), 1021-1032. doi: 10.1099/mic.0.27847-0

The ABC transporter gene in the sirodesmin biosynthetic gene cluster of Leptosphaeria maculans is not essential for sirodesmin production but facilitates self-protection

Gardiner, Donald M., Jarvis, Renee S. and Howlett, Barbara J. (2005). The ABC transporter gene in the sirodesmin biosynthetic gene cluster of Leptosphaeria maculans is not essential for sirodesmin production but facilitates self-protection. Fungal Genetics And Biology, 42 (3), 257-263. doi: 10.1016/j.fgb.2004.12.001

The sirodesmin biosynthetic gene cluster of the plant pathogenic fungus Leptosphaeria maculans

Gardiner, Donald M., Cozijnsen, Anton J., Wilson, Leanne M., Pedras, M. Soledade C. and Howlett, Barbara J. (2004). The sirodesmin biosynthetic gene cluster of the plant pathogenic fungus Leptosphaeria maculans. Molecular Microbiology, 53 (5), 1307-1318. doi: 10.1111/j.1365-2958.2004.04215.x

Negative selection using thymidine kinase increases the efficiency of recovery of transformants with targeted genes in the filamentous fungus Leptosphaeria maculans

Gardiner, Donald M. and Howlett, Barbara J. (2004). Negative selection using thymidine kinase increases the efficiency of recovery of transformants with targeted genes in the filamentous fungus Leptosphaeria maculans. Current Genetics, 45 (4), 249-255. doi: 10.1007/s00294-004-0488-6

Topical application of RNAi to improve crop health against fungal pathogens

Ravichander, Pratyush, Czislowski, Elizabeth, Aitken, Elizabeth, Gardiner, Donald and Mitter, Neena (2022). Topical application of RNAi to improve crop health against fungal pathogens. TropAg Internation Agriculture Conference, Brisbane, QLD Australia, 31 October - 2 November 2022.

Increased aggressiveness of Fusarium pseudograminearum isolates causing crown rot disease on wheat in Western Australia

Khudhair, M., Obanor, F., Thatcher, L. F., Gardiner, D., Kazan, K. and Aitken, E. (2018). Increased aggressiveness of Fusarium pseudograminearum isolates causing crown rot disease on wheat in Western Australia. International Congress of Plant Pathology (ICPP), Boston, MA United States, 29 July - 3 August 2018. St Paul, MN United States: American Phytopathological Society.

Sequence analysis of two genomic regions of Leptosphaeria maculans, the fungus that causes blackleg disease (phoma stem canker) of Brassica napus

Howlett, B. J., Gardiner, D. M., Cozijnsen, A. J., Wilson, L. M., Cattolico, L., Soledade, M., Pedras, C., Rouxel, T., Attard, A., Gout, L., Parlange, F., Ross, S. and Balesdent, M. H. (2006). Sequence analysis of two genomic regions of Leptosphaeria maculans, the fungus that causes blackleg disease (phoma stem canker) of Brassica napus. International Society for Horticultural Science. doi: 10.17660/ActaHortic.2006.706.3