Dr Iain Searle
Our research in plant and animal epigenetics has been driven by a strong interest in understanding and elucidating the molecular mechanisms of how plants and animals adapt to environmental signalling and how speciation barriers evolve in plants.
Epigenetics, broadly defined, refers to all genetic information not encoded in the DNA sequence, with the best-understood consequence of epigenetic modifications being the regulation of gene expression. Although gene transcription and protein synthesis is required for plant development, the full repertoire of epigenetic mechanisms underpinning biological adaptation and speciation barriers remain equivocal. Post-translational modification of histone proteins (i.e. acetylation, ubiquitination, etc) and the covalent modification of DNA (i.e. adenine methylation, cytosine methylation and other recently discovered marks) can influence the function of the genome in a myriad of ways, for example regulation of alternative splicing. In addition, the majority of the genome is pervasively transcribed such that more than 90% of transcriptional activity is related to the production of various long non-coding RNAs (lncRNA), which possess no or limited protein-coding capacity. Expansion of these transcriptionally active non-coding sequences in plant and animal genomes appears to have occurred primarily in higher multicellular organisms.
Furthermore, emerging evidence from our laboratory and others that RNA modifications play an important role in extending the transcriptional space. Thus, both RNA modifications and lncRNAs represent attractive candidates for achieving context- and stimulus-specific epigenetic regulation of gene expression.
Fundamental Research- We currently use a combination of molecular genetics, epigenomics and bioinformatics (high performance computing) to answer our research questions on long non-coding RNAs and RNA modifications. Honours, Masters, PhD and postdoctoral projects in genetics, epigenetics and bioinformatics are available.
Translational Research- We recently translated our wide-hybridisation technology to the Australian canola (Brassica napus) industry. In doing so we introduced disease resistance genes from either B. rapa or B. oleracea to synthesise B. napus (canola) with novel disease resistance. We are currently extending our translational canola research by connecting with international partners. Honours, Masters and PhD projects are available to develop the technology further in collaboration with industry partners. Are you a potential industry partner and want to connect? Don't hesitate to contact me.
Interested in joining our laboratory as an undergraduate placement student or postgraduate student? What to join our mentor programme? Ready to excel and be challenged with fascinating biological questions? Please don't hesitate to email me.
|2013||ARC Future Fellow||University of Adelaide|
|2009 - 2013||ARC QEII Fellow||Australian National University|
|German||Can speak and understand spoken|
|2004||University of Queensland||Australia||PhD|
|1996||University of Queensland||Australia||B Ag Sci Hons|
|2007 - 2009||Wellcome Trust VIP Fellow||University of Cambridge||United Kingdom|
|2006 - 2007||Marie Curie Postdoctoral Fellow||The Sainsbury Laboratory||United Kingdom|
|2002 - 2006||Max Planck Postdoctoral Fellow||Max Planck Institute for Plant Breeding Research||Germany|
|2017||David, R., Burgess, A., Parker, B., Li, J., Pulsford, K., Sibbritt, T. ... Searle, I. (2017). Transcriptome-wide Mapping of RNA 5-Methylcytosine in Arabidopsis mRNAs and non-coding RNAs. The Plant cell, 29, 3, 16.00751-1-16.0075-30.
|2017||Crisp, P., Ganguly, D., Smith, A., Murray, K., Estavillo, G., Searle, I. ... Pogson, B. (2017). Rapid recovery gene downregulation during excess-light stress and recovery in Arabidopsis. The Plant Cell, 29, 8, 1836-1863.
|2017||Liu, L., Jiang, Y., Zhang, X., Wang, X., Wang, Y., Han, Y. ... Chen, F. (2017). Two SUMO proteases SUMO PROTEASE RELATED TO FERTILITY 1 and -2 are required for fertility.. Plant physiology, pp.00021.2017-pp.00021.2017.
|2017||Wang, D., Qu, Z., Yang, L., Zhang, Q., Liu, Z., Do, T. ... Zhu, J. (2017). Transposable elements (TEs) contribute to stress-related long intergenic noncoding RNAs in plants. Plant Journal, 90, 1, 133-146.
|2016||Burgess, A., David, R. & Searle, I. (2016). Deciphering the epitranscriptome: a green perspective. Journal of Integrative Plant Biology, 58, 10, 822-835.
|2016||Ashby, R., Forêt, S., Searle, I. & Maleszka, R. (2016). MicroRNAs in Honey Bee Caste Determination. Scientific Reports, 6, 1, -.
|2016||Chen, M., Xu, J., Devis, D., Shi, J., Ren, K., Searle, I. & Zhang, D. (2016). Origin and functional prediction of pollen allergens in plants. Plant Physiology, 172, 1, 341-357.
|2015||Liu, H., Searle, I. R., Mather, D. E., Able, A. J. & Able, J. A. (2015). Morphological, physiological and yield responses of durum wheat to pre-anthesis water-deficit stress are genotype-dependent. Crop and Pasture Science, 66, 10, 1024-1038.
|2015||Burgess, A., David, R. & Searle, I. (2015). Conservation of tRNA and rRNA 5-methylcytosine in the kingdom Plantae. BMC Plant Biology, 15, 1, 199-1-199-17.
|2015||Liu, H., Searle, I., Watson-Haigh, N., Baumann, U., Mather, D., Able, A. & Able, J. (2015). Genome-wide identification of microRNAs in leaves and the developing head of four durum genotypes during water deficit stress. PLoS One, 10, 11, e0142799-1-e0142799-30.
|2013||Cazzonelli, C., Vanstraelen, M., Simon, S., Yin, K., Carron-Arthur, A., Nisar, N. ... Pogson, B. (2013). Role of the Arabidopsis PIN6 auxin transporter in auxin homeostasis and auxin-mediated development. PLoS One, 8, 7, 1-14.
|2012||Campoli, C., Drosse, B., Searle, I., Coupland, G. & von Korff, M. (2012). Functional characterisation of HvCO1, the barley (Hordeum vulgare) flowering time ortholog of CONSTANS. The Plant Journal, 69, 5, 868-880.
|2011||Indrasumunar, A., Searle, I., Lin, M., Kereszt, A., Men, A., Carroll, B. & Gresshoff, P. (2011). Nodulation factor receptor kinase 1α controls nodule organ number in soybean (Glycine max L. Merr). The Plant Journal, 65, 1, 39-50.
|2011||Gursanscky, N., Searle, I. & Carroll, B. (2011). Mobile microRNAs hit the target. Traffic, 12, 11, 1475-1482.
|2011||Castro Marín, I., Loef, I., Bartetzko, L., Searle, I., Coupland, G., Stitt, M. & Osuna, D. (2011). Nitrate regulates floral induction in Arabidopsis, acting independently of light, gibberellin and autonomous pathways. Planta, 233, 3, 539-552.
|2011||Burgess, A. & Searle, I. (2011). The clock primes defense at dawn. Immunology and Cell Biology, 89, 6, 661-662.
|2010||Searle, I., Pontes, O., Melnyk, C., Smith, L. & Baulcombe, D. (2010). JMJ14, a JmjC domain protein, is required for RNA silencing and cell-to-cell movement of an RNA silencing signal in Arabidopsis. Genes and Development, 24, 10, 986-991.
|2010||Indrasumunar, A., Kereszt, A., Searle, I., Miyagi, M., Li, D., Nguyen, C. ... Gresshoff, P. (2010). Inactivation of duplicated nod factor receptor 5 (NFR5) genes in recessive loss-of-function non-nodulation mutants of allotetraploid soybean (Glycine max L. Merr.). Plant and Cell Physiology, 51, 2, 201-214.
|2009||Huang, L., Jones, A., Searle, I., Patel, K., Vogler, H., Hubner, N. & Baulcombe, D. (2009). An atypical RNA polymerase involved in RNA silencing shares small subunits with RNA polymerase II. Nature Structural and Molecular Biology, 16, 1, 91-93.
|2007||Corbesier, L., Vincent, C., Jang, S., Fornara, F., Fan, Q., Searle, I. ... Coupland, G. (2007). FT protein movement contributes to long-distance signaling in floral induction of Arabidopsis. Science, 316, 5827, 1030-1033.
|2007||Smith, L., Pontes, O., Searle, I., Yelina, N., Yousafzai, F., Herr, A. ... Baulcombe, D. (2007). An SNF2 protein associated with nuclear RNA silencing and the spread of a silencing signal between cells in Arabidopsis. Plant Cell, 19, 5, 1507-1521.
|2006||Corbesier, L., Vincent, C., Searle, I., Fomara, F. & Coupland, G. (2006). Analysis of the expression pattern of FT protein during flowering. COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY, 143, 4, S166-S166.|
|2006||Searle, I., He, Y., Turck, F., Vincent, C., Fornara, F., Kröber, S. ... Coupland, G. (2006). The transcription factor FLC confers a flowering response to vernalization by repressing meristem competence and systemic signaling in Arabidopsis. Genes and Development, 20, 7, 898-912.
|2005||Berendzen, K., Searle, I., Ravenscroft, D., Koncz, C., Batschauer, A., Coupland, G. ... Ülker, B. (2005). A rapid and versatile combined DNA/RNA extraction protocol and its application to the analysis of a novel DNA marker set polymorphic between Arabidopsis thaliana ecotypes Col-0 and Landsberg erecta. Plant Methods, 1, 1, -.
|2004||Searle, I. & Coupland, G. (2004). Induction of flowering by seasonal changes in photoperiod. EMBO Journal, 23, 6, 1217-1222.
|2003||Waldron, J., Peace, C., Searle, I., Furtado, A., Wade, N., Findlay, I. ... Carroll, B. (2003). Randomly Amplified DNA Fingerprinting: A culmination of DNA marker technologies based on arbitrarily-primed PCR amplification. Journal of Biomedicine and Biotechnology, 2, 3, 141-150.
|2003||Searle, I., Men, A., Laniya, T., Buzas, D., Iturbe-Ormaetxe, I., Carroll, B. & Gresshoff, P. (2003). Long-distance signaling in nodulation directed by a CLAVATA1-like receptor kinase. Science, 299, 5603, 109-112.
|2002||May, K., Whisson, S., Zwart, R., Searle, I., Irwin, J., Maclean, D. ... Drenth, A. (2002). Inheritance and mapping of 11 avirulence genes in Phytophthora sojae. Fungal Genetics and Biology, 37, 1, 1-12.
|2002||Waldron, J., Peace, C., Searle, I., Furtado, A., Wade, N., Findlay, I. ... Carroll, B. (2002). Randomly amplified DNA fingerprinting: A culmination of DNA marker technologies based on arbitrarily-primed PCR amplification. Journal of Biomedicine and Biotechnology, 2002, 3, 141-150.
|1999||Schenk, G., Ge, Y., Carrington, L., Wynne, C., Searle, I., Carroll, B. ... De Jersey, J. (1999). Binuclear metal centers in plant purple acid phosphatases: Fe-Zn in sweet potato and Fe-Zn in soybean. Archives of Biochemistry and Biophysics, 370, 2, 183-189.
|2007||Searle, I., Mosher, R., Melnyk, C. & Baulcombe, D. (2007). Small RNAs hit the big time: Meetings. England.
|2015||David, R., Lim, H. M. & Searle, I. R. (2015). Identification of pla/ubp14, an Arabidopsis mutant that displays lengthened plastochron and larger organs. Annual Genetics Society of Australasia conference.|
|2016||Liu, H.; (2016); Genome-wide characterisation of microRNAs and their target genes in different durum wheat genotypes under water limiting conditions;|
|2015||Liu, H., Searle, I., Watson-Haigh, , Baumann, , Mather, D. E., Able, A. J. & Able, J. A.; (2015); Genome-wide identification of differentially expressed microRNAs in leaves and the developing head of four durum genotypes during water deficit stress;|
Competitive funding only listed below
- Hermon Slade Foundation- Investigator Searle (2017-2020)
- ACSRF Australia-China Joint Research Centre of Grains for Health- Investigators Gibosn, Searle, et al (2016-2019)
- ASTE Travel Grant- Investigator Searle (2015)
- ACSRF Australia-China Young Scientists Exchange Programme- Investigator Searle (2014)
- ARC Future Fellowship FT130100525- Investigator Searle (2014-2018)
- GRDC E-Innovation award- EzyCross- Investigators Searle & Salisbury (2013-2014)
- GRDC Travel Grant- Investigator Searle (2013)
- ANU Connect Ventures Direct Translation Fund- Investigators Lohe and Searle (2012)
- CSIRO SEIF top-up PhD scholarship- Investigators Searle and Helliwell (2011-2013)
- ARC Discovery Grant DP110103805- Investigators Searle and Helliwell (2011-2013)
- ARC QEII Fellowship DP0988846- Investigator Searle (2009-2014)
- Wellcome Trust Value-In-People Award- Investigator Searle (2008-2009)
- Epigenome travel scholarship- Investigator Searle (2007)
- Marie Curie International Incoming Fellowship- Investigator Searle (2006-2007)
- MICRO 2500 - Microbiology II
- GENETICS 2510 - Genetics IIA
- GENETICS 3211 - Gene Expression & Human Developmental Genetics III
- SCIENCE 3500- Opening Doors to the Middle Kingdom
- Acting honours convenor March-September 2016
- Hoang Nguyen
PhD students- primary supervisor
- Trung Do
- Jun Li
- Jing Zhao
- Xingyu Wu
PhD students- co-supervisor
- Haipei Liu
- Deborah Devis
Masters students- primary supervisor
Honours Students- primary supervisor
- Samuel Deed
- Pei Qin
Undergraduate mentor programme
- Pei Ng
- Rakesh David (Postdoctoral Fellow)
- Alice Burgess (PhD)
- Hua Deng (joint CSC PhD)
- Peter Crisp (PhD)
- Bruce Tsai (Masters)
- Kalinya Pulsford (Honours)
- Han Lim (Honours)
- Eliska Zlamalova (undergraduate)
- Graham Gower (undergraduate)
- Tyrone Chen (undergraduate)
- Gauri Tarle (overseas visitor)
- Arlet Estevez (overseas visitor)
- Franziska Gruhl (overseas visitor)
|2016 - 2019||Deputy Head of the Department of Genetics and Evolution||School of Biological Sciences, The University of Adelaide||Australia|
|2015 - ongoing||GSA South Australian Representative on Executive||Genetics Society of AustralAsia||Australia|