![Dr Peter Crisp](/sites/default/files/profiles/25567.jpeg)
Overview
Background
Dr Peter Crisp is an expert in crop genomics, epigenomics and molecular genetics. He leads a research group in the School of Agriculture and Food Science. His research group seeks to understand the contribution of epigenetics to heritable phenotypic variation in crop plants, focusing on cereals including barley, sorghum, wheat and maize. This includes the development of methods to harness epigenetic variation for crop improvement; understanding the role of epigenetics in stress responses and using innovative epigenomic approaches to distill large genomes down to the relatively small fraction of regions that are functionally important for trait variation. Research in the Crisp Lab spans both wet lab and computational biology providing a powerful platform to integrate genetic, genomic and biotechnological approaches.
Check out the CrispLab website here
Follow Dr Crisp on Twitter: @pete_crisp
Availability
- Dr Peter Crisp is:
- Available for supervision
Fields of research
Qualifications
- Doctor of Philosophy, Australian National University
Research impacts
Read about Dr Crisp’s work on plant stress memory and epigenetics in New Scientist here
Works
Search Professor Peter Crisp’s works on UQ eSpace
2024
Journal Article
Dynamics of mRNA fate during light stress and recovery: from transcription to stability and translation
Smith, Aaron B., Ganguly, Diep R., Moore, Marten, Bowerman, Andrew F., Janapala, Yoshika, Shirokikh, Nikolay E., Pogson, Barry J. and Crisp, Peter A. (2024). Dynamics of mRNA fate during light stress and recovery: from transcription to stability and translation. The Plant Journal, 117 (3), 818-839. doi: 10.1111/tpj.16531
2023
Journal Article
Genetic mapping, candidate gene identification and marker validation for host plant resistance to the race 4 of Fusarium oxysporum f. sp. cubense using Musa acuminata ssp. malaccensis
Chen, Andrew, Sun, Jiaman, Viljoen, Altus, Mostert, Diane, Xie, Yucong, Mangila, Leroy, Bothma, Sheryl, Lyons, Rebecca, Hřibová, Eva, Christelová, Pavla, Uwimana, Brigitte, Amah, Delphine, Pearce, Stephen, Chen, Ning, Batley, Jacqueline, Edwards, David, Doležel, Jaroslav, Crisp, Peter, Brown, Allan F., Martin, Guillaume, Yahiaoui, Nabila, D’Hont, Angelique, Coin, Lachlan, Swennen, Rony and Aitken, Elizabeth A. B. (2023). Genetic mapping, candidate gene identification and marker validation for host plant resistance to the race 4 of Fusarium oxysporum f. sp. cubense using Musa acuminata ssp. malaccensis. Pathogens, 12 (6) 820, 820. doi: 10.3390/pathogens12060820
2022
Journal Article
Epigenetic features drastically impact CRISPR–Cas9 efficacy in plants
Weiss, Trevor, Crisp, Peter A., Rai, Krishan M., Song, Meredith, Springer, Nathan M. and Zhang, Feng (2022). Epigenetic features drastically impact CRISPR–Cas9 efficacy in plants. Plant Physiology, 190 (2), 1153-1164. doi: 10.1093/plphys/kiac285
2022
Journal Article
Modeling chromatin state from sequence across angiosperms using recurrent convolutional neural networks
Wrightsman, Travis, Marand, Alexandre P., Crisp, Peter A., Springer, Nathan M. and Buckler, Edward S. (2022). Modeling chromatin state from sequence across angiosperms using recurrent convolutional neural networks. The Plant Genome, 15 (3) e20249, 1-13. doi: 10.1002/tpg2.20249
2022
Journal Article
Identifying transcription factor-DNA interactions using machine learning
Bang, Sohyun, Galli, Mary, Crisp, Peter A., Gallavotti, Andrea and Schmitz, Robert J. (2022). Identifying transcription factor-DNA interactions using machine learning. In Silico Plants, 4 (2) diac014, 1-15. doi: 10.1093/insilicoplants/diac014
2022
Journal Article
Enzymes degraded under high light maintain proteostasis by transcriptional regulation in Arabidopsis
Li, Lei, Duncan, Owen, Ganguly, Diep R., Lee, Chun Pong, Crisp, Peter A., Wijerathna-Yapa, Akila, Salih, Karzan, Trösch, Josua, Pogson, Barry J. and Millar, A. Harvey (2022). Enzymes degraded under high light maintain proteostasis by transcriptional regulation in Arabidopsis. Proceedings of the National Academy of Sciences, 119 (20) e2121362119, 1-11. doi: 10.1073/pnas.2121362119
2022
Journal Article
Genome‐wide loss of CHH methylation with limited transcriptome changes in Setaria viridis DOMAINS REARRANGED METHYLTRANSFERASE (DRM) mutants
Read, Andrew, Weiss, Trevor, Crisp, Peter A, Liang, Zhikai, Noshay, Jaclyn, Menard, Claire C, Wang, Chunfang, Song, Meredith, Hirsch, Candice N, Springer, Nathan M and Zhang, Feng (2022). Genome‐wide loss of CHH methylation with limited transcriptome changes in Setaria viridis DOMAINS REARRANGED METHYLTRANSFERASE (DRM) mutants. The Plant Journal, 111 (1), 103-116. doi: 10.1111/tpj.15781
2022
Journal Article
Decoding the sorghum methylome: understanding epigenetic contributions to agronomic traits
Vafadarshamasbi, Ulduz, Mace, Emma, Jordan, David and Crisp, Peter A. (2022). Decoding the sorghum methylome: understanding epigenetic contributions to agronomic traits. Biochemical Society Transactions, 50 (1), 583-596. doi: 10.1042/bst20210908
2022
Journal Article
Harnessing genetic variation at regulatory regions to fine-tune traits for climate resilient crops
Ganguly, Diep R., Hickey, Lee T. and Crisp, Peter A. (2022). Harnessing genetic variation at regulatory regions to fine-tune traits for climate resilient crops. Molecular Plant, 15 (2), 222-224. doi: 10.1016/j.molp.2021.12.011
2022
Journal Article
Beyond the gene: epigenetic and cis-regulatory targets offer new breeding potential for the future
Crisp, Peter A., Bhatnagar-Mathur, Pooja, Hundleby, Penny, Godwin, Ian D., Waterhouse, Peter M. and Hickey, Lee T. (2022). Beyond the gene: epigenetic and cis-regulatory targets offer new breeding potential for the future. Current Opinion in Biotechnology, 73, 88-94. doi: 10.1016/j.copbio.2021.07.008
2022
Journal Article
Epigenome guided crop improvement: current progress and future opportunities
Zhang, Yan, Andrews, Haylie, Eglitis-Sexton, Judith, Godwin, Ian, Tanurdžić, Miloš and Crisp, Peter A. (2022). Epigenome guided crop improvement: current progress and future opportunities. Emerging Topics in Life Sciences, 6 (2), 141-151. doi: 10.1042/etls20210258
2022
Journal Article
Prediction of conserved and variable heat and cold stress response in maize using cis-regulatory information
Zhou, Peng, Enders, Tara A., Myers, Zachary A., Magnusson, Erika, Crisp, Peter A., Noshay, Jaclyn M., Gomez-Cano, Fabio, Liang, Zhikai, Grotewold, Erich, Greenham, Kathleen and Springer, Nathan M. (2022). Prediction of conserved and variable heat and cold stress response in maize using cis-regulatory information. The Plant Cell, 34 (1), 514-534. doi: 10.1093/plcell/koab267
2021
Other Outputs
Enzymes degraded under high light maintain proteostasis by transcriptional regulation in Arabidopsis
Li, Lei, Duncan, Owen, Ganguly, Diep R., Lee, Chun Pong, Crisp, Peter A., Wijerathna-Yapa, Akila, Salih, Karzan, Trösch, Josua, Pogson, Barry J. and Millar, A. Harvey (2021). Enzymes degraded under high light maintain proteostasis by transcriptional regulation in Arabidopsis.
2021
Journal Article
Stability of DNA methylation and chromatin accessibility in structurally diverse maize genomes
Noshay, Jaclyn M., Liang, Zhikai, Zhou, Peng, Crisp, Peter A., Marand, Alexandre P., Hirsch, Candice N., Schmitz, Robert J. and Springer, Nathan M. (2021). Stability of DNA methylation and chromatin accessibility in structurally diverse maize genomes. G3: Genes, Genomes, Genetics, 11 (8) jkab190. doi: 10.1093/g3journal/jkab190
2021
Journal Article
Science forum: a community-led initiative for training in reproducible research
Auer, Susann, Haelterman, Nele A., Weissgerber, Tracey L., Erlich, Jeffrey C., Susilaradeya, Damar, Julkowska, Magdalena, Gazda, Małgorzata Anna, Schwessinger, Benjamin, Jadavji, Nafisa M., Abitua, Angela, Niraulu, Anzela, Shahb, Aparna, Clyburne-Sherinb, April, Guiquel, Benoit, Alicea, Bradly, Lamanna, Caroline, Ganguly, Diep, Perkins, Eric, Jambor, Helena, Li, Ian Man Ho, Tsang, Jennifer, Kamens, Joanne, Teytelman, Lenny, Paul, Mariella, Cronin, Michelle, Schmelling, Nicolas, Crisp, Peter, Kutum, Rintu, Phuyal, Santosh ... Bachle, Susanna (2021). Science forum: a community-led initiative for training in reproducible research. eLife, 10 e64719. doi: 10.7554/eLife.64719
2021
Journal Article
Current status and prospects of plant genome editing in Australia
Zhang, Yan, Restall, Jemma, Crisp, Peter, Godwin, Ian and Liu, Guoquan (2021). Current status and prospects of plant genome editing in Australia. In Vitro Cellular & Developmental Biology - Plant, 57 (4), 1-10. doi: 10.1007/s11627-021-10188-y
2021
Journal Article
Genetic and epigenetic variation in transposable element expression responses to abiotic stress in maize
Liang, Zhikai, Anderson, Sarah N., Noshay, Jaclyn M., Crisp, Peter A., Enders, Tara A. and Springer, Nathan M. (2021). Genetic and epigenetic variation in transposable element expression responses to abiotic stress in maize. Plant Physiology, 186 (1), 1-14. doi: 10.1093/plphys/kiab073
2021
Journal Article
Assessing the regulatory potential of transposable elements using chromatin accessibility profiles of maize transposons
Noshay, Jaclyn M., Marand, Alexandre P., Anderson, Sarah N., Zhou, Peng, Mejia Guerra, Maria Katherine, Lu, Zefu, O’Connor, Christine H., Crisp, Peter A., Hirsch, Candice N., Schmitz, Robert J. and Springer, Nathan M. (2021). Assessing the regulatory potential of transposable elements using chromatin accessibility profiles of maize transposons. Genetics, 217 (1) iyaa003, 1-13. doi: 10.1093/genetics/iyaa003
2020
Journal Article
Stable unmethylated DNA demarcates expressed genes and their cis-regulatory space in plant genomes
Crisp, Peter A., Marand, Alexandre P., Noshay, Jaclyn M., Zhou, Peng, Lu, Zefu, Schmitz, Robert J. and Springer, Nathan M. (2020). Stable unmethylated DNA demarcates expressed genes and their cis-regulatory space in plant genomes. Proceedings of the National Academy of Sciences, 117 (38), 202010250-24000. doi: 10.1073/pnas.2010250117
2020
Journal Article
Optimization of multiplexed CRISPR/Cas9 system for highly efficient genome editing in Setaria viridis
Weiss, Trevor, Wang, Chunfang, Kang, Xiaojun, Zhao, Hui, Elena Gamo, Maria, Starker, Colby G., Crisp, Peter A., Zhou, Peng, Springer, Nathan M., Voytas, Daniel F. and Zhang, Feng (2020). Optimization of multiplexed CRISPR/Cas9 system for highly efficient genome editing in Setaria viridis. Plant Journal, 104 (3) tpj.14949, 828-838. doi: 10.1111/tpj.14949
Supervision
Availability
- Dr Peter Crisp is:
- Available for supervision
Before you email them, read our advice on how to contact a supervisor.
Available projects
-
Uncovering the contribution of epigenetics to heritable phenotypic variation in crops using (epi)genomics and large data
New bioinformatic approaches for epigenomic analysis and epiGWAS in crops
A bioinformatics oriented RHD project is available to study epigenomic variation and inheritance in crops including maize, sorghum and barley. This project will involve the development of new bioinformatic strategies to analyse novel types of epigenomic data we have developed in the lab. This project will address fundamental questions at the core of the field of epigenetics; and will have outcomes that are important for modern plant breeding and agriculture. The project can be largely bioinformatics or encompass a blend of wet lab (biotech and molecular biology) and computational work. Some prior bioinformatics experience is an advantage, although not essential if you are enthusiastic about learning bioinformatics.
-
Other projects available - get in touch!
Projects can also be designed on new topics where our interests overlap and are happy to chat.
- We are particularly interested in new projects in the areas of (epi)genomics and bioinformatics
Other areas include:
- Crop genomics and epigenomics
- Biotechnology and CRISPR (sorghum and barley)
- Bioinformatics focused on epigenomic analysis and DNA methylation
- Enhancers and chromatin modifications
Supervision history
Current supervision
-
Doctor Philosophy
Investigating and bioengineering grain quality in sorghum
Principal Advisor
Other advisors: Professor Ian Godwin, Associate Professor Marina Fortes, Dr Milos Tanurdzic
-
Doctor Philosophy
Pan-epigenomics for crop improvement
Principal Advisor
Other advisors: Professor Lee Hickey, Dr Kai Voss-Fels
-
Doctor Philosophy
Genome editing tools for monocot crop improvement
Principal Advisor
Other advisors: Professor Jimmy Botella
-
Doctor Philosophy
Using epigenomics to discover and modify hidden genetic control elements for crop improvement
Principal Advisor
Other advisors: Professor Ian Godwin
-
Doctor Philosophy
Investigating the potential for epigenetic gain and precision genome engineering in barley and wheat improvement
Principal Advisor
Other advisors: Professor Lee Hickey, Dr Hannah Robinson
-
Doctor Philosophy
Transcriptomics of insect-induced galls on eucalypts
Associate Advisor
Other advisors: Associate Professor Lyn Cook
-
Doctor Philosophy
Nitrogen use dynamics in high protein gene edited sorghum
Associate Advisor
Other advisors: Dr Karen Massel, Dr Millicent Smith, Professor Ian Godwin
-
Doctor Philosophy
Enhancing Crop Resilience through Genome Editing: Overcoming Genetic Limitations
Associate Advisor
Other advisors: Professor Lee Hickey
-
Doctor Philosophy
Harnessing natural genetic variation and genome engineering to optimise barley root systems
Associate Advisor
Other advisors: Professor Andrew Borrell, Professor Ian Godwin, Dr Karen Massel, Professor Lee Hickey, Dr Hannah Robinson
-
Doctor Philosophy
Exploring the genome landscape of heterosis in sorghum
Associate Advisor
Other advisors: Professor David Jordan, Professor Emma Mace
-
Doctor Philosophy
Factors affecting flesh colour of mango fruit (Mangifera indica) and subsequent potential health benefit.
Associate Advisor
-
Doctor Philosophy
Development of Transgene-free Genome Editing Technologies for the Improvement of Dicot Crops
Associate Advisor
Other advisors: Professor Jimmy Botella
-
Doctor Philosophy
Networks in shoot branching
Associate Advisor
Other advisors: Professor Christine Beveridge
Completed supervision
-
2024
Doctor Philosophy
Investigating the epigenetic contribution to trait variation in sorghum
Principal Advisor
Other advisors: Professor David Jordan, Professor Emma Mace
Media
Enquiries
For media enquiries about Dr Peter Crisp's areas of expertise, story ideas and help finding experts, contact our Media team: