Ute Baumann

Ute Baumann

School of Agriculture, Food and Wine

Faculty of Sciences

Eligible to supervise Masters and PhD - email supervisor to discuss availability.


Ute Baumann is the Bioinformatics Leader at the School of Agriculture, Food and Wine and also leads Program 5, Genomics for Breeding, of the ARC Industry Hub for Wheat in a Hot and Dry Climate. She manages a diverse team of highly skilled experts that is instrumental in the success of a wide range of projects and industry collaborations. The combination of a PhD in Molecular Biology and a postgraduate certificate in Bioinformatics followed by extensive research experience allows her to effectively facilitate and manage collaborations between biologists and computer scientists. Ute has a long standing international reputation and expertise in cereal bioinformatics and genomics and is frequently approached to consult on use of Next Generation Sequencing technologies and experimental design. In this capacity she was elected to be a board member of the International Wheat Genome Sequencing Consortium.

Bioinformatics has become an important component in many plant research areas, from addressing topics in plant development to the elucidation of abiotic stress tolerance.

This has resulted in the participation of my research group in a large variety of research projects both at national and international level, often in close collaboration with established Australian breeders and multinational agribusiness. In my research I apply bioinformatics to investigate the genetic control of economically important traits across a range of commercial crops. My interest in genome and genetic diversity has also lead to the development of bioinformatic tools to visualise and mine genomic resources to identify allelic variation underlying loci of interest. Other projects have investigated transcriptome responses to environmental stresses like heat, drought, salt or boron, which are particularly problematic in the Australian context.

 

Date Project / No.  Investigators Title Funding Body
2017-2018 UA1503 C Rodriguez Lopez, E Edwards (CSIRO), U Baumann, R De Bei, P Tricker Using the epigenetic memory of stress to prime grapevines for a changing environment Australian Grape and Wine Authority
2016-2020 LP15010069 U Baumann, Haefele S, N Collins, S Praud [BioGemma, France] Exploring genetic diversity to identify new heat tolerance genes in wheat. Australian Research Council
2015-2020 IH130200027 D Fleury, U Baumann, N Borysyuk, N Collins, S Haefele, B Kaiser, P Langridge, S Miklavcic, M-J Appelbee, J Juttner,  H. Kuchel, D Mullen Genetic diversity and molecular breeding for wheat in a hot and dry climate Australian Research Council [Industrial Transformation Research Hub]
2015-2017 AISRF33760 D Fleury, N Collins, U Baumann, S Haefele Mining alleles for heat tolerance of wheat in Australian and Indian environments for development of heat resilient cultivars Australia-India Strategic Research Fund
2014-2017  IRGP15 D Fleury, U Baumann, P Langridge, P Tricker, C Posniak [CDC University of Saskatchewan,Canada], C. Ceoloni [DAFNE Universita di Tuscia Italy], Molecular diversity drive for precision-engineered wheat SA Gov. Premier’s Research and Industry Fund’s International Research Grant Program
2013-2018  Pioneer_Hybrid U Baumann, R Whitford, T Okada Wheat Hybrid Program Dupont-Pioneer, USA
Date Project / No.  Collaborators Title Funding Body
2013 ABN00001 U Baumann, J Taylor, P Moolhuuijzen Wheat Bioinformaticians' Forum Australian Bioinformatics Connection Grant
2013 ABN00002 N Watson-Haigh, G Wilson, U Baumann, C Shang, A McGrath, P Bayer Improving bioinformaticians' productivity through Software Carpentry Australian Bioinformatics Connection Grant
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  • Current Higher Degree by Research Supervision (University of Adelaide)

    Date Role Research Topic Program Degree Type Student Load Student Name
    2020 Co-Supervisor Inter-Vine Signalling via Plant Volatiles (UA, ICHDR1) Doctor of Philosophy Doctorate Full Time Miss Joanah Midzi
    2019 Co-Supervisor Nested Association Mapping to Identify Genomic Regions Associated with Wheat Yield under Australian Agronomic Conditions Doctor of Philosophy Doctorate Full Time Miss Charity Chidzanga
  • Past Higher Degree by Research Supervision (University of Adelaide)

    Date Role Research Topic Program Degree Type Student Load Student Name
    2016 - 2020 Co-Supervisor Understanding Flower Development in Barley (Hordeum Vulgare) through Characterisation of Multiovary Mov Mutants and Their Potential Use in Hybrid Breeding Doctor of Philosophy Doctorate Full Time Miss Caterina Selva
    2016 - 2018 Co-Supervisor Genetic Mapping and Physiological Analysis of Heat Tolerance in Wheat Master of Philosophy Master Full Time Mr Mohammed Mizanur Rahman
    2015 - 2019 Co-Supervisor Genome editing in wheat with CRISPR/Cas9 Doctor of Philosophy Doctorate Full Time Taj Arndell
    2014 - 2018 Principal Supervisor Wheat non-specific Lipid Transfer Proteins: identification and characterisation of nuclear-encoded fertility restorer genes Doctor of Philosophy Doctorate Full Time Mr Allan Kouidri
    2014 - 2018 Principal Supervisor Defining Transcriptional Networks Associated with Plant Salinity Tolerance Doctor of Philosophy Doctorate Full Time Ms Shanika Lakmini Amarasinghe
    2012 - 2012 Co-Supervisor Transcription Factors Important in the Regulation of Salinity Tolerance Doctor of Philosophy Doctorate Full Time Mr Michael Dow
    2009 - 2013 Co-Supervisor Cell Type-specific Transcriptional Responses of Plants to Salinity Doctor of Philosophy under a Cotutelle Agreement with Doctorate Full Time Miss Aurelie Christiane Patricia Evrard
    2006 - 2007 Co-Supervisor Using Sequence Similarity to Predict the Function of Biological Sequences Master of Science in Mathematical and Computer Sciences Master Full Time Mr Craig Jones
    2005 - 2009 Co-Supervisor Dissection of Traits Relating to Flowering and Reproductive Frost Tolerance on Chromosome 2HL of Barley (Hordeum vulgare L.) Doctor of Philosophy Doctorate Full Time Mr Andrew Chen
    2005 - 2009 Co-Supervisor Whole Genome Approaches to Identify Genes Involved in Early Meiosis Doctor of Philosophy Doctorate Full Time Mr Wayne Crismani
    2004 - 2010 Co-Supervisor Conserved Control Signals in the transcriptome of Higher Plants Doctor of Philosophy Doctorate Full Time Mr Khanh Tran
    2004 - 2010 Principal Supervisor Functional Characterisation of Plant Cytosolic Thioredoxins Doctor of Philosophy Doctorate Full Time Dr Fleur Dolman
    2003 - 2008 Principal Supervisor The Transcriptional Response of Barley (Hordeum vulgare L.) to Boron Toxicity Doctor of Philosophy Doctorate Full Time Mr Mahmood Hassan
    1996 - 2003 Co-Supervisor An Analysis of Thioredoxins h in the Grasses Doctor of Philosophy Doctorate Full Time Dr Juan Juttner
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  • Board Memberships

    Date Role Board name Institution name Country
    2018 - ongoing Member Editorial Board Nature Scientific Reports United Kingdom
    2018 - ongoing Board Member Board of Directors International Wheat Genome Sequencing Consortium United States
  • Committee Memberships

    Date Role Committee Institution Country
    2017 - ongoing Member ABACBS Conference Committee Australia
    2015 - ongoing Member International Wheat Genome Sequencing Consortium IWGSC
    2015 - ongoing Member Management Committee Australian Center for Plant Functional Genomics Australia
    2015 - ongoing Member Wheat Data Interoperability Working Group Research Data Alliance
    2014 - ongoing Member Wheat Information System Expert Working Group Wheat Initiative
    2005 - 2014 Member PhD student Advisory Committee ACPFG Australia

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