Areas of expertise

• Developmental Genetics (Incl. Sex Determination) 060403
• Gene Expression (Incl. Microarray And Other Genome Wide Approaches) 060405
• Biochemistry And Cell Biology 0601
• Other Biological Sciences 0699

Publications

• Paulsen, J, Ali, T, Nekrasov, M et al 2019, 'Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation', Nature Genetics, vol. 51, no. 5, pp. 835-843.
• Anuar, N, Kurscheid, S, Field, M et al 2019, 'Gene editing of the multi-copy H2A.B gene and its importance for fertility 06 Biological Sciences 0604 Genetics Jin-Soo Kim', Genome Biology, vol. 20, no. 1, pp. -.
• Soboleva, T & Tremethick, D 2018, 'RChIP-Seq: Chromatin-Associated RNA Sequencing in Developmentally Staged Mouse Testes', in Guillermo A. Orsi and Geneviève Almouzni (ed.), Histone Variants: Methods and Protocols, Humana Press, New York, pp. 169-184.
• Ryan, D & Tremethick, D 2018, 'The interplay between H2A.Z and H3K9 methylation in regulating HP1 binding to linker histone-containing chromatin', Nucleic Acids Research, vol. 46, no. 18, pp. 9353-9366pp.
• Tasset, C, Yadav, A, Sureshkumar, S et al. 2018, 'POWERDRESS-mediated histone deacetylation is essential for thermomorphogenesis in Arabidopsis thaliana', PLoS Genetics, vol. 14, no. 3, pp. 1-21.
• Soboleva, T, Parker, B, Nekrasov, M et al 2017, 'A new link between transcriptional initiation and pre-mRNA splicing: The RNA binding histone variant H2A.B', PLoS Genetics, vol. 13, no. 2, pp. e1006633-e1006633.
• Moretti, C, Serrentino, M, Ialy-Radio, C et al 2017, 'SLY regulates genes involved in chromatin remodeling and interacts with TBL1XR1 during sperm differentiation', Cell Death and Differentiation, vol. 24, no. 6, pp. 1029-1044.
• Domaschenz, R, Kurscheid, S, Nekrasov, M et al 2017, 'The Histone Variant H2A.Z Is a Master Regulator of the Epithelial-Mesenchymal Transition', Cell Reports, vol. 21, no. 4, pp. 943-952.
• Ryan, D & Tremethick, D 2016, 'A dual affinity-tag strategy for the expression and purification of human linker histone H1.4 in Escherichia coli', Protein Expression and Purification, vol. 120, pp. 160-168.
• Soboleva, T, Nekrasov, M, Ryan, D et al 2014, 'Histone variants at the transcription start-site', Trends in Genetics, vol. 30, no. 5, pp. 199-209.
• Nekrasov, M, Soboleva, T, Jack, C et al 2013, 'Histone variant selectivity at the transcription start site H2A.Z or H2A.Lap1', Nucleus, vol. 4, no. 6, pp. 431-437.
• Talbert, P, Ahmad, K, Almouzni, G et al 2012, 'A unified phylogeny-based nomenclature for histone variants', Epigenetics and Chromatin, vol. 5, no. 1.
• Luger, K, Mekonnen, D & Tremethick, D 2012, 'New insights into nucleosome and chromatin structure: An ordered state or a disordered affair?', Nature Reviews: Molecular Cell Biology, vol. 13, no. 7, pp. 436-447.
• Valdes-Mora, F, Song, J, Statham, A et al 2012, 'Acetylation of H2A.Z is a key epigenetic modification associated with gene deregulation and epigenetic remodeling in cancer', Genome Research, vol. 22, no. 2, pp. 307-321.
• Nekrasov, M, Amrichova, J, Parker, B et al., 'Histone H2A.Z inheritance during the cell cycle and its impact on promoter organization and dynamics', Nature Structural and Molecular Biology. 2012, vol. 19, no. 11, pp. 1076-1083.
• Soboleva TA, Nekrasov M, Pahwa A, Williams R, Huttley GA, Tremethick DJ. 'A unique H2A histone variant occupies the transcriptional start site of active genes', Nature Structural and Molecular Biology. 2012 Jan; 19(1): 25-30.
• Koina, E, Chaumeil, J, Greaves, I et al 2009, 'Specific patterns of histone marks accompany X chromosome inactivation in a marsupial', Chromosome Research, vol. 17, pp. 115-126.
• Juelich, T, Sutcliffe, E, Denton, A et al. 2009, 'Interplay between chromatin remodeling and epigenetic changes during lineage-specific commitment to granzyme B expression', Journal of Immunology, vol. 183, pp. 7063-7072.
• Sutcliffe, EL, Parish, IA, He, YQ et al 2009, 'Dynamic histone variant exchange accompanies gene induction in T cells', Molecular and Cellular Biology, vol. 29, no. 7, pp. 1972-1986.
• Rangasamy, D, Tremethick, D & Greaves, I 2008, 'Gene knockdown by ecdysone-based inducible RNAi in stable mammalian cell lines', Nature Protocols, vol. 3, no. 1, pp. 79-88.
• Wagstaff, K, Fan, J, De Jesus, M et al 2008, 'Efficient gene delivery using reconstituted chromatin enhanced for nuclear targeting', The FASEB journal : official publication of the Federation of American Societies for Experimental Biology, vol. 22, no. 7, pp. 2232-42.
• Tremethick, D 2007, 'Higher-order structures of chromatin: the elusive 30 nm fiber', Cell, vol. 128, no. 4, pp. 651-654.
• Wagstaff, K, Glover, D, Tremethick, D et al 2007, 'Histone-mediated transduction as an efficient means for gene delivery', Molecular therapy : the journal of the American Society of Gene Therapy, vol. 15, no. 4, pp. 721-31.
• Zhou, J, Fan, J, Rangasamy, D et al 2007, 'The nucleosome surface regulates chromatin compaction and couples it with transcriptional repression', Nature Structural and Molecular Biology, vol. 14, no. 11, pp. 1070-6.
• Greaves, I, Rangasamy, D, Ridgway, P et al 2007, 'H2A.Z contributes to the unique 3D structure of the centromere', PNAS - Proceedings of the National Academy of Sciences of the United States of America, vol. 104, pp. 525-30.
• Fan, J, Zhou, J & Tremethick, D 2007, 'Quantitative analysis of HP1alpha binding to nucleosomal arrays', Methods, vol. 41, no. 1, pp. 286-90.
• Tremethick, D 2006, 'Chromatin: the dynamic link between structure and function', Chromosome Research, vol. 14, no. 1, pp. 1-4.
• Yang, M, Rangasamy, D, Matthaei, K et al. 2006, 'Inhibition of Arginase I Activity by RNA Interference Attenuates IL-13-Induced Airways Hyperresponsiveness', Journal of Immunology, vol. 177, no. 8, pp. 5595-603.
• Bulynko, Y, Hsing, L, Mason, R et al 2006, 'Cathepsin L stabilizes the histone modification landscape on the y chromosome and pericentromeric heterochromatin', Molecular and Cellular Biology, vol. 26, no. 11, pp. 4172-4184.
• Greaves, I, Rangasamy, D, Devoy, M et al 2006, 'The X and Y chromosomes assemble into H2A.Z, containing facultative heterochromatin, following meiosis', Molecular and Cellular Biology, vol. 26, no. 14, pp. 5394-405.
• Bruce, K, Myers, F, Mantouvalou, E et al 2005, 'The replacement histone H2A.Z in a hyperacetylated form is a feature of active genes in the chicken', Nucleic Acids Research, vol. 33, no. 17, pp. 5633-5639.
• Chakravarthy, S, Bao, Y, Roberts, V et al 2005, 'Structural characterization of histone H2A variants', Cold Spring Harbour Symposia on Quantitative Biology, vol. 69, pp. 227-234.
• Henderson, A, Holloway, A, Reeves, R et al. 2004, 'Recruitment of SWI/SNF to the Human Immunodeficiency Virus Type 1 Promoter', Molecular and Cellular Biology, vol. 24, no. 1, pp. 389-397.
• Ridgway, P, Brown, K, Rangasamy, D et al 2004, 'Unique Residues on the H2A.Z Containing Nucleosome Surface Are Important for Xenopus laevis Development', Journal of Biological Chemistry, vol. 279, no. 42, pp. 43815-43820.
• Rangasamy, D, Greaves, I & Tremethick, D 2004, 'RNA interference demonstrates a novel role for H2A.Z in chromosome segregation', Nature Structural and Molecular Biology, vol. 11, no. 7, pp. 650-655.
• Park, Y, Dyer, P, Tremethick, D et al 2004, 'A New Fluorescence Resonance Energy Transfer Approach Demonstrates That the Histone Variant H2AZ Stabilizes the Histone octamer within the Nucleosome', Journal of Biological Chemistry, vol. 279, no. 23, pp. 24274-24282.
• Fan, J, Rangasamy, D, Luger, K et al 2004, 'H2A.Z Alters the Nucleosome Surface to Promote HP1�-Mediated Chromatin Fiber Folding', Molecular Cell, vol. 16, pp. 655-661.
• Bao, Y, Konesky, K, Park, Y et al 2004, 'Nucleosomes containing the histone variant H2A.Bbd organize only 118 base pairs of DNA', The EMBO Journal, vol. 23, no. 16, pp. 3314-3324.
• Ridgway, P, Rangasamy, D, Berven, L et al 2004, 'Analysis of Histone Variant H2A.Z localisation and expression during early development', Methods in Enzymology, vol. 375, pp. 239-252.
• Rangasamy, D, Berven, L, Ridgway, P et al 2003, 'Pericentric heterochromatin becomes enriched with H2A.Z during early mammalian development', The EMBO Journal, vol. 22, pp. 1599-1607.
• Dogra, S, Tremethick, D & May, F 2003, 'Evidence That the Coactivator CBP/p300 Is Important for Phenobarbital-Induced but Not Basal Expression of the CYP2H1 Gene', Molecular Pharmacology, vol. 63, no. 1, pp. 73-80.
• Fan, J, Gordon, F, Luger, K et al 2002, 'The essential histone variant H2A.Z regulates the equilibrium between different chromatin conformational states', Nature Structural Biology, vol. 9, no. 3, pp. 172-176.
• Attema, J, Reeves, R, Murray, V et al. 2002, 'The human IL-2 Gene Promoter Can Assemble a Positioned Nucleosome That Becomes Remodeled Upon T Cell Activation.', Journal of Immunology, vol. 169, pp. 2466-2476.
• Faast, R, Thonglairoam, V, Schulz, T et al 2001, 'Histone variant H2A.Z is required for early mammalian development', Current Biology, vol. 11, pp. 1183-187.
• Henderson, A, Bunce, M, Siddon, N et al. 2000, 'High-Mobility-Group Protein I Can Modulate Binding of Transcription Factors to the U5 Region of the Human Immunodificiency Virus Type 1 Proviral Promoter', Journal of Virology, vol. 74, pp. 10523-10534.
• Johnson-Saliba, M, Siddon, N, Clarkson, M et al. 2000, 'Distinct importin recognition properties of histones and chromatin assembly factors.', FEBS Letters, vol. 467, pp. 169-174.
• Guschin, D, Geiman, T, Kikyo, N et al 2000, 'A Multiple ISWI ATPase complexes from Xenopus laevis', Journal of Biological Chemistry, vol. 2750, pp. 35248-35255.
• Tremethick, D 1999, 'Chromatin assembly in xenopus extracts', Methods in Enzymology, vol. 304, pp. 50-63.

Projects and Grants

Grants information is drawn from ARIES. To add or update Projects or Grants information please contact your College Research Office.

• Elucidating the organisational principals of genome architecture: the role of histone variants and architectural chromatin binding proteins (Primary Investigator)
• Ultasonic Bioruptor by Diagenode (35814 - GNT9000538) (Primary Investigator)
• Uncovering new epigenetic-based regulatory mechanisms of gene expression: novel links between histone variants, RNA function and disease (Primary Investigator)
• Dissecting a novel RNA-histone variant interaction and its role in splicing (Primary Investigator)
• The ACRF Department of Cancer Biology and Therapeutics (Secondary Investigator)
• The special role of histone variants in regulating the inheritance and 3-dimensional organisation of the epigenome (Primary Investigator)
• Regulation of ribosomal gene chromatin during malignant transformation (Secondary Investigator)
• Bio-Rad NGC Quest 10 Plus Chromatography System (See 27886) (Primary Investigator)
• National Collaborative Research Infrastructure Strategy Bioplatforms Australia (BPA) Project (Secondary Investigator)
• How our genome is regulated to determine cell function (Primary Investigator)
• A new function for histone variants in the tissue-specific regulation of pre-mRNA splicing (Primary Investigator)
• QuantStudio 3D Digital PCR System (See 27887) (Primary Investigator)
• Understanding how dynamic changes in chromatin composition control genome function (Primary Investigator)
• Emerging Biomolecular Platforms and Informatics Project (Primary Investigator)
• C1000 Touch Cycler + T100 Thermal Cycler (See 26118) (Primary Investigator)
• New "HyD" high sensitivity detector for Leica confocal microscope (See 23912) (Primary Investigator)
• LAS AF SP5 Deconvolution software (See 22803) (Primary Investigator)
• Mechanisms underpinning the epigebetic code and the role of histone variants (Primary Investigator)
• Identification of components required for genome-wide paternal imprinting during seed development of plants (Secondary Investigator)
• How chromatin compaction is regulated and its link with disease (Primary Investigator)
• Beckman Allegra X-22R benchtop centrifuge set with swinging bucket rotor with four buckets and adaptor (See 22085) (Primary Investigator)
• Multiphoton confocal microscope (Secondary Investigator)
• The organisation of the chromosome into distinct epigenetic domains and its link with development and disease (Primary Investigator)
• Regulation of the histone code by histone variants (Primary Investigator)
• The Dynamic Control of Chromatin Structure (Primary Investigator)