Projects per year
Personal profile
Previous positions
2006-2009: Human Frontier Science Project Postdoctoral Fellow (Joseph Ecker), The Salk Institute for Biological Studies, La Jolla, CA, USA.
2005-2006: Postdoctoral Fellow (James Whelan), Department of Biochemistry and Molecular Biology, The University of Western Australia, Perth, Australia.
2001-2005: Ph.D. (James Whelan), Department of Biochemistry and Molecular Biology, The University of Western Australia, Perth, Australia.
Research
Just as the fixed notes of a musical instrument can be played in different combinations, orders and strengths to create unique songs, different cells in a complex multicellular organism can produce their distinctive form and function by each expressing particular combinations of genes from the genome. By modulating accessibility to the information encoded in the genome, epigenetic modifications can affect gene activation and repression to execute distinct transcriptional programs and impart a heritable state of transcriptional activity. In essence, the epigenome is a regulatory code that is superimposed upon the genome that can modify the cellular readout of the underlying information encoded in the DNA sequence. Developing a comprehensive understanding of how the cell utilizes epigenetic modifications is essential in order to both understand the critical roles it plays in eukaryotic development and stress response, and to develop effective strategies to remedy its disruption in disease states.
We use advanced DNA sequencing, molecular, genetic and computational techniques in a diverse range of complex multicellular organisms, including plants, humans, mice, and social insects, to study the epigenome and epigenetic mechanisms at the molecular scale. Recent advances in DNA sequencing technology now enable us to rapidly identify precisely where epigenetic modifications, such as DNA methylation and histone modifications, occur throughout entire plant and animal genomes1-3. The research in my laboratory aims to understand how the information encoded in the DNA of plant and animal genomes is controlled by epigenetic mechanisms during development, how the epigenome may be altered by the surrounding environment, and to develop molecular tools to reprogram it.
Keywords
- Epigenetics
- Epigenomics
- DNA methylation
- Genomics (plant, animal)
- Stem cells
- Induced pluripotent stem cells
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Projects 2013 2022
2018 - MaxOne High Resolution Multi Electrode Array MEA
Lister, R., Fox, A., Smith, N., Swaminatha Iyer, K., Hool, L., Bakker, A., Hodgetts, S., Rodger, J., Hemmi, J., Fitzgerald, M., Ravenscroft, G., Forrest, A., Chen, F., Dilley, R. & Wallace, V.
National Health & Medical Research Council NHMRC
1/01/19 → 31/12/19
Project: Research
ACRF Centre for Advanced Cancer Genomics (NovaSeq)
Forrest, A., Leedman, P., Lister, R., Lassmann, T., Saunders, C., Farah, C., Robinson, B., Nowak, A., Kees, U., Johns, T., Ganss, R., Hoffman, W., Lake, R., Millward, M., Ziman, M. & Amanuel, B.
Australian Cancer Research Foundation
30/10/18 → 29/10/21
Project: Research
Program 3 - Theme 1- The Stem Cell Atlas and Theme 3 - Engineered Cells
1/07/18 → 30/06/19
Project: Research
Investigating the molecular signature of ASD through integrative genomics
Lister, R., Voineagu, I. & Gratten, J.
1/01/18 → 31/12/20
Project: Research
Ryan Lister
Howard Hughes Medical Institute - International Research Scholars Program
1/09/17 → 30/08/22
Project: Research
Research Output 2001 2018
A modular dCas9-SunTag DNMT3A epigenome editing system overcomes pervasive off-target activity of direct fusion dCas9-DNMT3A constructs
Pflueger, C., Tan, D., Swain, T., Nguyen, T. V., Pflueger, J., Nefzger, C., Polo, J. M., Ford, E. & Lister, R., Aug 2018, In : Genome Research. 28, 8, p. 1193-1206Research output: Contribution to journal › Article
Amphioxus functional genomics and the origins of vertebrate gene regulation
Marlétaz, F., Firbas, P. N., Maeso, I., Tena, J. J., Bogdanovic, O., Perry, M., Wyatt, C. D. R., de la Calle-Mustienes, E., Bertrand, S., Burguera, D., Acemel, R. D., van Heeringen, S. J., Naranjo, S., Herrera-Ubeda, C., Skvortsova, K., Jimenez-Gancedo, S., Aldea, D., Marquez, Y., Buono, L., Kozmikova, I. & 41 others , 6 Dec 2018, In : Nature. 564, 7734, p. 64-70 7 p.Research output: Contribution to journal › Article
Approaches for the analysis and interpretation of whole genome bisulfite sequencing data
Stuart, T., Buckberry, S. & Lister, R., 2018, Epigenome Editing: Methods and Protocols. Jeltsch, A. & Rots, M. G. (eds.). New York: Springer, Vol. 1767. p. 299-310 12 p. (Methods in Molecular Biology).Research output: Chapter in Book/Conference paper › Chapter
Cell culture-generated neurons show non-physiological DNA methylation signatures
Poppe, D., Martin, S., Pflueger, J., Wolvetang, E. & Lister, R., 22 Jun 2018.Research output: Contribution to conference › Poster
Generation of Whole Genome Bisulfite Sequencing Libraries for Comprehensive DNA Methylome Analysis
Vargas-Landin, D. B., Pflüger, J. & Lister, R., 2018, Epigenome Editing: Methods and Protocols. New York: Springer, p. 291-298 8 p. (Methods in Molecular Biology; vol. 1767).Research output: Chapter in Book/Conference paper › Chapter
Datasets
GSM1977638: xl_st10.5_MethylC-seq
Bogdanovic, O. (Creator), Lister, R. (Creator), Gene Expression Omnibus (NCBI), 26 Aug 2016
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1977638
Dataset
Data from: Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements
Secco, D. (Creator), Wang, C. (Creator), Shou, H. (Creator), Schultz, M. D. (Creator), Chiarenza, S. (Creator), Nussaume, L. (Creator), Ecker, J. R. (Creator), Whelan, J. (Creator), Lister, R. (Creator), Dryad Digital Repository, 6 Aug 2015
DOI: 10.5061/dryad.40gd6, https://datadryad.org/resource/doi:10.5061/dryad.40gd6
Dataset