Dr Ute Baumann

Grant-Funded Senior Research Fellow

School of Agriculture, Food and Wine

College of Science

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 Position Institution name
2017 - ongoing Bioinformatics Group Leader School of Agriculture, Food and Wine
2012 - 2016 Bioinformatics Leader Australian Centre for Plant Functional Genomics
1991 - 1992 Consultant Ministry for Environment

Language Competency
German Can read, write, speak, understand spoken and peer review

Date Institution name Country Title
University of Adelaide, Adelaide Australia PhD

Year Citation
2025 Genc, Y., Baumann, U., Cheong, J., Taylor, J., Atieno, J., Walter, J., . . . Sutton, T. (2025). Loss of HKT1;5D via a spontaneous terminal deletion elevates leaf sodium in bread wheat, but is independent of yield or salinity tolerance.. J Exp Bot, 76(16), 4627-4639.
DOI
2024 Pallotta, M., Okada, T., Roy, S., Pearson, A., Baumann, U., & Whitford, R. (2024). Diversity in bread and durum wheat stigma morphology and linkage of increased stigma length to dwarfing gene Rht14. Theoretical and Applied Genetics: international journal of plant breeding research, 137(7), 160-1-160-15.
DOI Scopus4 WoS4 Europe PMC4
2024 Amalraj, A., Baumann, U., Hayes, J. E., & Sutton, T. (2024). Using RNA sequencing to unravel molecular changes underlying the defense response in chickpea induced by Phytophthora medicaginis.. Physiol Plant, 176(4), e14412.
DOI Scopus1 WoS1 Europe PMC1
2023 Tan, J. W., Shinde, H., Tesfamicael, K., Hu, Y., Fruzangohar, M., Tricker, P., . . . Rodríguez López, C. M. (2023). Global transcriptome and gene co-expression network analyses reveal regulatory and non-additive effects of drought and heat stress in grapevine. Frontiers in Plant Science, 14, 1-15.
DOI Scopus23 WoS20 Europe PMC14
2023 Selva, C., Yang, X., Shirley, N. J., Whitford, R., Baumann, U., & Tucker, M. R. (2023). HvSL1 and HvMADS16 promote stamen identity to restrict multiple ovary formation in barley. Journal of Experimental Botany, 74(17), 5039-5056.
DOI Scopus9 WoS9 Europe PMC7
2023 Khan, H. A., Sharma, N., Siddique, K. H. M., Colmer, T. D., Sutton, T., & Baumann, U. (2023). Comparative transcriptome analysis reveals molecular regulation of salt tolerance in two contrasting chickpea genotypes. Frontiers in Plant Science, 14, 1191457.
DOI Scopus8 WoS9 Europe PMC7
2023 Midzi, J., Jeffery, D. W., Baumann, U., Capone, D. L., Rogiers, S. Y., & Pagay, V. (2023). Evidence of Bi-Directional Volatile-Mediated Communication between Drought-Stressed and Well-Watered Grapevines (Vitis vinifera L.). Agronomy, 13(7), 1747.
DOI Scopus3 WoS3
2022 Nguyen, D. T., Hayes, J. E., Atieno, J., Li, Y., Baumann, U., Pattison, A., . . . Sutton, T. (2022). The genetics of vigour-related traits in chickpea (Cicer arietinum L.): insights from genomic data. Theoretical and Applied Genetics, 135(1), 107-124.
DOI Scopus11 WoS10 Europe PMC7
2022 Schultz, C. J., Wu, Y., & Baumann, U. (2022). A targeted bioinformatics approach identifies highly variable cell surface proteins that are unique to Glomeromycotina. Mycorrhiza, 32(1), 45-66.
DOI Scopus3 WoS3 Europe PMC2
2022 Laugerotte, J., Baumann, U., & Sourdille, P. (2022). Genetic control of compatibility in crosses between wheat and its wild or cultivated relatives.. Plant biotechnology journal, 20(5), 812-832.
DOI Scopus26 WoS22 Europe PMC23
2022 Akpinar, B. A., Leroy, P., Watson-Haigh, N., Baumann, U., Barbe, V., & Budak, H. (2022). The complete genome sequence of elite bread wheat cultivar, "Sonmez".. F1000Research, 11, 1-9.
DOI Scopus5 Europe PMC5
2022 Selva, C., Shirley, N., Houston, K., Whitford, R., Baumann, U., Li, G., & Tucker, M. R. (2022). HvLEAFY controls the early stages of floral organ specification and inhibits the formation of multiple ovaries in barley. The Plant Journal, 108(2), 509-527.
DOI Scopus21 WoS21 Europe PMC21
2022 Midzi, J., Jeffery, D. W., Baumann, U., Rogiers, S., Tyerman, S. D., & Pagay, V. (2022). Stress-Induced Volatile Emissions and Signalling in Inter-Plant Communication. Plants, 11(19), 1-30.
DOI Scopus66 WoS55 Europe PMC34
2022 Chidzanga, C., Mullan, D., Roy, S., Baumann, U., & Garcia, M. (2022). Nested association mapping-based GWAS for grain yield and related traits in wheat grown under diverse Australian environments. Theoretical and Applied Genetics, 135(12), 4437-4456.
DOI Scopus18 WoS18 Europe PMC9
2021 Menadue, D. J., Riboni, M., Baumann, U., Schilling, R. K., Plett, D. C., & Roy, S. J. (2021). Proton-pumping pyrophosphatase homeolog expression is a dynamic trait in bread wheat (Triticum aestivum). Plant Direct, 5(10), 1-16.
DOI Scopus1 WoS1 Europe PMC2
2021 Chidzanga, C., Fleury, D., Baumann, U., Mullan, D., Watanabe, S., Kalambettu, P., . . . de Oliveira Santos Garcia, M. (2021). Development of an Australian bread wheat nested association mapping population, a new genetic diversity resource for breeding under dry and hot climates. International Journal of Molecular Sciences, 22(9), 4348-1-4348-18.
DOI Scopus9 WoS9 Europe PMC8
2021 Tiong, J., Sharma, N., Sampath, R., MacKenzie, N., Watanabe, S., Metot, C., . . . Okamoto, M. (2021). Improving nitrogen use efficiency through overexpression of alanine aminotransferase in rice, wheat, and barley. Frontiers in Plant Science, 12, 1-18.
DOI Scopus55 WoS45 Europe PMC24
2021 Derkx, A., Baumann, U., Cheong, J., Mrva, K., Sharma, N., Pallotta, M., & Mares, D. (2021). A Major Locus on Wheat Chromosome 7B Associated With Late-Maturity α-Amylase Encodes a Putative ent-Copalyl Diphosphate Synthase. Front Plant Sci, 12, 1-17.
DOI Scopus17 WoS16 Europe PMC10
2021 Tura, H., Edwards, J., Gahlaut, V., Garcia, M., Sznajder, B., Baumann, U., . . . Fleury, D. (2021). Correction to: QTL analysis and fine mapping of a QTL for yield‑related traits in wheat grown in dry and hot environments. Theoretical and Applied Genetics, 134(5), 1 page.
DOI
2021 Okada, T., Jayasinghe, R. M., Eckermann, P., Watson-Haigh, N. S., Warner, P., Williams, M. E., . . . Whitford, R. (2021). Genetic factors associated with favourable pollinator traits in the wheat cultivar Piko. Functional Plant Biology, 48(4), 434-447.
DOI Scopus6 WoS6 Europe PMC6
2021 Thomelin, P., Bonneau, J., Brien, C., Suchecki, R., Baumann, U., Kalambettu, P., . . . Fleury, D. (2021). The wheat Seven in absentia gene is associated with increases in biomass and yield in hot climates. Journal of Experimental Botany, 72(10), 3744-3791.
DOI Scopus19 WoS16 Europe PMC11
2021 Serra, H., Svačina, R., Baumann, U., Whitford, R., Sutton, T., Bartoš, J., & Sourdille, P. (2021). Ph2 encodes the mismatch repair protein MSH7-3D that inhibits wheat homoeologous recombination.. Nat Commun, 12(1), 1-10.
DOI Scopus58 WoS51 Europe PMC47
2020 Camp, A., Croxford, A. E., Ford, C. S., Baumann, U., Clements, P. R., Hiendleder, S., . . . Wilkinson, M. J. (2020). Dual-locus DNA metabarcoding reveals southern hairy-nosed wombats (Lasiorhinus latifrons Owen) have a summer diet dominated by toxic invasive plants.. PLoS One, 15(3), e0229390.
DOI Scopus10 WoS10 Europe PMC7
2020 Amarasinghe, S., Huang, W., Watson-Haigh, N., Gilliham, M., Roy, S., & Baumann, U. (2020). AtCIPK16 Mediates Salt Stress Through Phytohormones and Transcription Factors.
DOI
2020 Selva, C., Riboni, M., Baumann, U., Wurschum, T., Whitford, R., & Tucker, M. R. (2020). Hybrid breeding in wheat: how shaping the floral biology can offer new perspectives. Functional Plant Biology, 47(8), 47-8.
DOI Scopus24 WoS24 Europe PMC17
2020 Tura, H., Edwards, J., Gahlaut, V., Garcia, M., Sznajder, B., Baumann, U., . . . Fleury, D. (2020). QTL analysis and fine mapping of a QTL for yield-related traits in wheat grown in dry and hot environments. Theoretical and Applied Genetics, 133(1), 239-257.
DOI Scopus57 WoS52 Europe PMC31
2019 Fruzangohar, M., Kalashyan, E., Kalambettu, P., Ens, J., Wiebe, K., Pozniak, C. J., . . . Baumann, U. (2019). Novel Informatic Tools to Support Functional Annotation of the Durum Wheat Genome.. Frontiers in plant science, 10, 10 pages.
DOI Scopus5 WoS4 Europe PMC3
2019 Arndell, T., Sharma, N., Langridge, P., Baumann, U., Watson-Haigh, N. S., & Whitford, R. (2019). gRNA validation for wheat genome editing with the CRISPR-Cas9 system.. BMC biotechnology, 19(1), 71.
DOI Scopus65 WoS51 Europe PMC39
2019 Broad, R. C., Bonneau, J. P., Beasley, J. T., Roden, S., Philips, J. G., Baumann, U., . . . Johnson, A. A. T. (2019). Genome-wide identification and characterization of the GDP-L-galactose phosphorylase gene family in bread wheat.. BMC plant biology, 19(1), 515.
DOI Scopus12 WoS11 Europe PMC10
2019 Garcia, M., Eckermann, P., Haefele, S., Satija, S., Sznajder, B., Timmins, A., . . . Fleury, D. (2019). Genome-wide association mapping of grain yield in a diverse collection of spring wheat (Triticum aestivum L.) evaluated in southern Australia. PLoS ONE, 14(2), e0211730-1-e0211730-19.
DOI Scopus66 WoS59 Europe PMC48
2019 Casartelli, A., Melino, V. J., Baumann, U., Riboni, M., Suchecki, R., Jayasinghe, N. S., . . . Heuer, S. (2019). Opposite fates of the purine metabolite allantoin under water and nitrogen limitations in bread wheat. Plant Molecular Biology, 99(4-5), 477-497.
DOI Scopus42 WoS43 Europe PMC32
2019 Okada, A., Arndell, T., Borisjuk, N., Sharma, N., Watson-Haigh, N. S., Tucker, E. J., . . . Whitford, R. (2019). CRISPR/Cas9-mediated knockout of Ms1 enables the rapid generation of male-sterile hexaploid wheat lines for use in hybrid seed production. Plant Biotechnology Journal, 17(10), 1905-1913.
DOI Scopus155 WoS123 Europe PMC84
2019 Okada, T., Jayasinghe, R. M., Eckermann, P., Watson-Haigh, N. S., Warner, P., Hendrikse, Y., . . . Whitford, R. (2019). Effects of Rht-B1 and Ppd-D1 loci on pollinator traits in wheat. Theoretical and Applied Genetics, 132(7), 1965-1979.
DOI Scopus32 WoS31 Europe PMC22
2019 Suchecki, R., Sandhu, A., Deschamps, S., Llaca, V., Wolters, P., Watson-Haigh, N., . . . Baumann, U. (2019). LNISKS: Reference-free mutation identification for large and complex crop genomes. Biorxiv.
DOI Europe PMC1
2019 Pallotta, M. A., Warner, P., Kouidri, A., Tucker, E. J., Baes, M., Suchecki, R., . . . Whitford, R. (2019). Wheat ms5 male-sterility is induced by recessive homoeologous A and D genome non-specific lipid transfer proteins. Plant Journal, 99(4), 673-685.
DOI Scopus35 WoS33 Europe PMC23
2019 Balfourier, F., Bouchet, S., Robert, S., De Oliveira, R., Rimbert, H., Kitt, J., . . . Paux, E. (2019). Worldwide phylogeography and history of wheat genetic diversity. SCIENCE ADVANCES, 5(5), 10 pages.
DOI WoS126 Europe PMC107
2019 Amarasinghe, S. L., Watson-Haigh, N. S., Byrt, C., James, R., Qiu, J., Berkowitz, O., . . . Baumann, U. (2019). Transcriptional variation is associated with differences in shoot sodium accumulation in distinct barley varieties. Environmental and Experimental Botany, 166, 103812-1-103812-15.
DOI Scopus5 WoS5
2019 Thomelin, P., Bonneau, J., Brien, C., Suchecki, R., Baumann, U., Kalambettu, P., . . . Fleury, D. (2019). The wheat Seven in Absentia gene is associated with increases in biomass and yield in hot climates.
DOI
2018 Keeble-Gagnère, G., Rigault, P., Tibbits, J., Pasam, R., Hayden, M., Forrest, K., . . . Appels, R. (2018). Optical and physical mapping with local finishing enables megabase-scale resolution of agronomically important regions in the wheat genome. Genome Biology, 19(1), 112-1-112-18.
DOI Scopus24 WoS22 Europe PMC20
2018 Kouidri, A., Whitford, R., Suchecki, R., Kalashyan, E., & Baumann, U. (2018). Genome-wide identification and analysis of non-specific Lipid Transfer Proteins in hexaploid wheat. Scientific Reports, 8(1), 12 pages.
DOI Scopus16 WoS15 Europe PMC13
2018 Kouidri, A., Baumann, U., Okada, T., Baes, M., Tucker, E., & Whitford, R. (2018). Wheat TaMs1 is a glycosylphosphatidylinositol-anchored lipid transfer protein necessary for pollen development. BMC Plant Biology, 18(1), 13 pages.
DOI Scopus18 WoS19 Europe PMC15
2018 Watson-Haigh, N. S., Suchecki, R., Kalashyan, E., Garcia, M., & Baumann, U. (2018). DAWN: a resource for yielding insights into the diversity among wheat genomes. BMC Genomics, 19(1), 941-1-941-20.
DOI Scopus19 WoS20 Europe PMC16
2018 Okada, T., Jayasinghe, R., Nansamba, M., Baes, M., Warner, P., Kouidri, A., . . . Baumann, U. (2018). Unfertilized ovary pushes wheat flower open for cross-pollination. Journal of Experimental Botany, 69(3), 399-412.
DOI Scopus34 WoS31 Europe PMC26
2018 Sharma, N., Dang, T., Singh, N., Ruzicic, S., Mueller-Roeber, B., Baumann, U., & Heuer, S. (2018). Allelic variants of OsSUB1A cause differential expression of transcription factor genes in response to submergence in rice. Rice, 11(2), 1-19.
DOI Scopus17 WoS18 Europe PMC10
2017 Quesneville, H., Dzale Yeumo, E., Alaux, M., Arnaud, E., Aubin, S., Baumann, U., . . . Whan, A. (2017). Developing data interoperability using standards: A wheat community use case. F1000research, 6, 1843.
DOI Scopus16 Europe PMC11
2017 Tucker, E., Baumann, U., Kouidri, A., Suchecki, R., Baes, M., Garcia, M., . . . Whitford, R. (2017). Molecular identification of the wheat male fertility gene Ms1 and its prospects for hybrid breeding. Nature Communications, 8(1), 869-1-869-10.
DOI Scopus91 WoS86 Europe PMC59
2017 Suchecki, R., Watson-Haigh, N., & Baumann, U. (2017). POTAGE: A Visualisation Tool for Speeding up Gene Discovery in Wheat. Scientific Reports, 7(1), 8 pages.
DOI Scopus9 WoS10 Europe PMC7
2016 Li, B., Byrt, C., Qiu, J., Baumann, U., Hrmova, M., Evrard, A., . . . Roy, S. (2016). Identification of a stelar-localized transport protein that facilitates root-to-shoot transfer of chloride in arabidopsis. Plant Physiology, 170(2), 1014-1029.
DOI Scopus102 WoS89 Europe PMC67
2016 Harris, J., Sornaraj, P., Taylor, M., Bazanova, N., Baumann, U., Lovell, B., . . . Hrmova, M. (2016). Molecular interaction of the γ-clade homeodomain-leucine zipper class I transcription factors during the wheat response to water deficit. Plant Molecular Biology, 90(4), 435-452.
DOI Scopus33 WoS32 Europe PMC23
2016 Schoppach, R., Taylor, J., Majerus, E., Claverie, E., Baumann, U., Suchecki, R., . . . Sadok, W. (2016). High resolution mapping of traits related to whole-plant transpiration under increasing evaporative demand in wheat. Journal of Experimental Botany, 67(9), 2847-2860.
DOI Scopus52 WoS49 Europe PMC31
2016 Amarasinghe, S., Watson-Haigh, N. S., Gilliham, M., Roy, S., & Baumann, U. (2016). The evolutionary origin of CIPK16: a gene involved in enhanced salt tolerance. Molecular Phylogenetics and Evolution, 100, 135-147.
DOI Scopus11 WoS9 Europe PMC8
2016 Bonneau, J., Baumann, U., Beasley, J., Li, Y., & Johnson, A. (2016). Identification and molecular characterization of the nicotianamine synthase gene family in bread wheat. Plant Biotechnology Journal, 14(12), 2228-2239.
DOI Scopus58 WoS50 Europe PMC39
2016 Plett, D., Holtham, L., Baumann, U., Kalashyan, E., Francis, K., Enju, A., . . . Kaiser, B. (2016). Nitrogen assimilation system in maize is regulated by developmental and tissue-specific mechanisms. Plant Molecular Biology, 92(3), 293-312.
DOI Scopus20 WoS19 Europe PMC12
2016 Plett, D., Baumann, U., Schreiber, A., Holtham, L., Kalashyan, E., Toubia, J., . . . Kaiser, B. (2016). Maize maintains growth in response to decreased nitrate supply through a highly dynamic and developmental stage-specific transcriptional response. Plant Biotechnology Journal, 14(1), 342-353.
DOI Scopus17 WoS16 Europe PMC10
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.
DOI Scopus49 WoS43 Europe PMC31
2014 Pallotta, M., Schnurbusch, T., Hayes, J., Hay, A., Baumann, U., Paull, J., . . . Sutton, T. (2014). Molecular basis of adaptation to high soil boron in wheat landraces and elite cultivars. Nature, 514(7520), 88-91.
DOI Scopus96 WoS85 Europe PMC57
2014 Henderson, S., Baumann, U., Blackmore, D., Walker, A., Walker, R., & Gilliham, M. (2014). Shoot chloride exclusion and salt tolerance in grapevine is associated with differential ion transporter expression in roots. BMC Plant Biology, 14(1), 273-1-273-18.
DOI Scopus94 WoS91 Europe PMC55
2013 Sleep, J., Schreiber, A., & Baumann, U. (2013). Sequencing error correction without a reference genome. BMC Bioinformatics, 14(article no. 367), 1-8.
DOI Scopus20 WoS16 Europe PMC15
2013 Hayes, J., Pallotta, M., Baumann, U., Berger, B., Langridge, P., & Sutton, T. (2013). Germanium as a tool to dissect boron toxicity effects in barley and wheat. Functional Plant Biology, 40(6), 618-627.
DOI Scopus25 WoS19 Europe PMC2
2012 Schreiber, A., Hayden, M., Forrest, K., Kong, S., Langridge, P., & Baumann, U. (2012). Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat. BMC Genomics, 13(1), 1-14.
DOI Scopus35 WoS34 Europe PMC30
2012 Huynh, B., Mather, D., Schreiber, A., Toubia, J., Baumann, U., Shoaei, Z., . . . Fleury, D. (2012). Clusters of genes encoding fructan biosynthesizing enzymes in wheat and barley. Plant Molecular Biology, 80(3), 299-314.
DOI Scopus27 WoS22 Europe PMC15
2012 Edwards, D., Wilcox, S., Barrero, R., Fleury, D., Cavanagh, C., Forrest, K., . . . Fitzgerald, A. (2012). Bread matters: a national initiative to profile the genetic diversity of Australian wheat. Plant Biotechnology Journal, 10(6), 703-708.
DOI Scopus40 WoS31 Europe PMC31
2012 Lai, K., Duran, C., Berkman, P., Lorenc, M., Stiller, J., Manoli, S., . . . Edwards, D. (2012). Single nucleotide polymorphism discovery from wheat next-generation sequence data. Plant Biotechnology Journal, 10(6), 743-749.
DOI Scopus96 WoS79 Europe PMC72
2011 Schreiber, A., Shi, B., Huang, C., Langridge, P., & Baumann, U. (2011). Discovery of barley miRNAs through deep sequencing of short reads. BMC Genomics, 12(1), 1-21.
DOI Scopus112 WoS100 Europe PMC77
2011 Conn, S., Gilliham, M., Athman, A., Schreiber, A., Baumann, U., Moller, I., . . . Leigh, R. (2011). Cell-specific vacuolar calcium storage mediated by CAX1 regulates apoplastic calcium concentration, gas exchange, and plant productivity in arabidopsis. Plant Cell, 23(1), 240-257.
DOI Scopus231 WoS208 Europe PMC148
2011 Cotsaftis, O., Plett, D., Johnson, A., Walia, H., Wilson, C., Ismail, A., . . . Baumann, U. (2011). Root-specific transcript profiling of contrasting rice genotypes in response to salinity stress. Molecular Plant, 4(1), 25-41.
DOI Scopus127 WoS114 Europe PMC76
2010 Plett, D., Toubia, J., Garnett, T., Tester, M., Kaiser, B., & Baumann, U. (2010). Dichotomy in the NRT gene families of dicots and grass species. PLoS One, 5(12), 1-10.
DOI Scopus151 WoS141 Europe PMC95
2010 Schnurbusch, T., Hayes, J., Hrmova, M., Baumann, U., Ramesh, S., Tyerman, S., . . . Sutton, T. (2010). Boron toxicity tolerance in barley through reduced expression of the multifunctional aquaporin HvNIP2;1. Plant Physiology, 153(4), 1706-1715.
DOI Scopus159 WoS142 Europe PMC98
2010 Burton, R., Ma, G., Baumann, U., Harvey, A., Shirley, N., Taylor, J., . . . Fincher, G. (2010). A customized gene expression microarray reveals that the brittle stem phenotype fs2 of barley is attributable to a retroelement in the HvCesA4 cellulose synthase gene. Plant Physiology, 153(4), 1716-1728.
DOI Scopus38 WoS32 Europe PMC25
2010 Hassan, M., Oldach, K., Baumann, U., Langridge, P., & Sutton, T. (2010). Genes mapping to boron tolerance QTL in barley identified by suppression subtractive hybridization. Plant Cell and Environment, 33(2), 188-198.
DOI Scopus11 WoS8 Europe PMC6
2009 Schreiber, A., Sutton, T., Caldo, R., Kalashyan, E., Lovell, B., Mayo, G., . . . Baumann, U. (2009). Comparative transcriptomics in the Triticeae. BMC Genomics, 10(1), 1-17.
DOI Scopus55 WoS54 Europe PMC49
2009 Chen, A., Gusta, L., Brule-Babel, A., Leach, R., Baumann, U., Fincher, G., & Collins, N. (2009). Varietal and chromosome 2H locus-specific frost tolerance in reproductive tissues of barley (Hordeum vulgare L.) detected using a frost simulation chamber. Theoretical and Applied Genetics, 119(4), 685-694.
DOI Scopus19 WoS17 Europe PMC10
2009 Chen, A., Reinheimer, J., Brûlé-Babel, A., Baumann, U., Pallotta, M., Fincher, G., & Collins, N. (2009). Genes and traits associated with chromosome 2H and 5H regions controlling sensitivity of reproductive tissues to frost in barley. Theoretical and Applied Genetics, 118(8), 1465-1476.
DOI Scopus19 WoS15 Europe PMC12
2009 Chen, A., Baumann, U., Fincher, G., & Collins, N. (2009). Flt-2L, a locus in barley controlling flowering time, spike density, and plant height. Functional & Integrative Genomics, 9(2), 243-254.
DOI Scopus39 WoS34 Europe PMC24
2009 Chen, A., Brûlé-Babel, A., Baumann, U., & Collins, N. (2009). Structure-function analysis of the barley genome: the gene-rich region of chromosome 2HL. Functional & Integrative Genomics, 9(1), 67-79.
DOI Scopus14 WoS14 Europe PMC12
2008 Tran, M., Schultz, C., & Baumann, U. (2008). Conserved upstream open reading frames in higher plants. BMC Genomics, 9(1), 1-17.
DOI Scopus62 WoS56 Europe PMC52
2008 Jones, C., Schwerdt, J., Bretag, T., Baumann, U., & Brown, A. (2008). GOSLING: a rule-based protein annotator using BLAST and GO. Bioinformatics, 24(22), 2628-2629.
DOI Scopus13 WoS11 Europe PMC8
2007 Sutton, T., Baumann, U., Hayes, J., Collins, N., Shi, B., Schnurbusch, T., . . . Langridge, P. (2007). Boron toxicity tolerance in barley arising from efflux transporter amplification. Science, 318(5855), 1446-1449.
DOI Scopus383 WoS341 Europe PMC244
2007 Jones, C., Brown, A., & Baumann, U. (2007). Estimating the annotation error rate of curated GO database sequence annotations. BMC Bioinformatics, 8(170), WWW 1-WWW 9.
DOI Scopus114 WoS106 Europe PMC99
2007 Schreiber, A., & Baumann, U. (2007). A framework for gene expression analysis. Bioinformatics, 23(2), 191-197.
DOI Scopus4 WoS4 Europe PMC4
2007 Whitford, R., Baumann, U., Sutton, T., Gumaelius, L., Wolters, P., Tingey, S., . . . Langridge, P. (2007). Identification of transposons, retroelements, and a gene family predominantly expressed in floral tissues in chromosome 3DS of the hexaploid wheat progenitor Aegilops tauschii. Functional & Integrative Genomics, 7(1), 37-52.
DOI Scopus9 WoS8 Europe PMC7
2006 Crismani, W., Baumann, U., Sutton, T., Shirley, N., Webster, T., Spangenberg, G., . . . Able, J. (2006). Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat. BMC Genomics, 7(267), 1-17.
DOI Scopus77 WoS64 Europe PMC55
2006 Lunde, C., Baumann, U., Shirley, N., Drew, D., & Fincher, G. (2006). Gene structure and expression pattern analysis of three monodehydroascorbate reductase (Mdhar) genes in Physcomitrella patens: Implications for the evolution of the MDHAR family in plants. Plant Molecular Biology, 60(2), 259-275.
DOI Scopus57 WoS46 Europe PMC28
2006 Druka, A., Muehlbauer, G., Druka, I., Caldo, R., Baumann, U., Rostoks, N., . . . Waugh, R. (2006). An atlas of gene expression from seed to seed through barley development. Functional & Integrative Genomics, 6(3), 202-211.
DOI Scopus130 Europe PMC96
2005 Jones, C., Baumann, U., & Brown, A. (2005). Automated methods of predicting the function of biological sequences using GO and BLAST. BMC Bioinformatics, 6(272), WWW 1-WWW 10.
DOI Scopus40 WoS37 Europe PMC31
2005 Sprunck, S., Baumann, U., Edwards, K., Langridge, P., & Dresshaus, T. (2005). The transcript composition of egg cells changes significantly following fertilization in wheat (Triticum aestivum L.). Plant Journal, 41(5), 660-672.
DOI Scopus124 WoS117 Europe PMC110
2004 Bian, X., Friedrich, A., Bai, J., Baumann, U., Hayman, D., Barker, S., & Langridge, P. (2004). High-resolution mapping of the S and Z loci of Phalaris coerulescens. Genome, 47(5), 918-930.
DOI Scopus25 WoS23 Europe PMC21
2003 Sutton, T., Whitford, R., Baumann, U., Dong, C., Able, J., & Langridge, P. (2003). The Ph2 pairing homoeologous locus of wheat (Triticum aestivum): identification of candidate meiotic genes using a comparative genetics approach. Plant Journal, 36(4), 443-456.
DOI Scopus64 WoS56 Europe PMC45
2002 Baumann, U., & Juttner, J. (2002). Plant thioredoxins: the multiplicity conundrum. Cellular and Molecular Life Sciences, 59(6), 1042-1057.
DOI Scopus45 Europe PMC34
2000 Juttner, J., Olde, D., Langridge, P., & Baumann, U. (2000). Cloning and expression of a distinct subclass of plant thioredoxins. FEBS Journal, 267(24), 7109-7117.
DOI Scopus32 WoS31 Europe PMC25
2000 Baumann, U., Juttner, J., Bian, X., & Langridge, P. (2000). Self-incompatibility in the grasses. Annals of Botany, 85(SUPPL. A), 203-209.
DOI Scopus85 WoS80
1999 Langridge, P., Baumann, U., & Juttner, J. (1999). Revisiting and Revising the Self-Incompatibility Genetics of Phalaris coerulescens. Plant Cell, 11(10), 1826.
DOI Scopus13 WoS18
1997 Baumann, U., & Langridge, P. (1997). A pollen-specific cDNA of Phalaris coerulescens shows homology to Zm13. Sexual Plant Reproductions, 10(2), 124-125.
DOI
1993 Ramos, R. G. P., Igloi, G. L., Lichte, B., Baumann, U., Maier, D., Schneider, T., . . . Fischbach, K. F. (1993). The irregular chiasm C-roughest locus of Drosophila, which affects axonal projections and programmed cell death, encodes a novel immunoglobulin-like protein. Genes and Development, 7(12 PART B), 2533-2547.
DOI Scopus153 Europe PMC137

Year Citation
2023 Selva, C., Yang, X., Whitford, R., Baumann, U., & Tucker, M. (2023). Establishing a genetic blueprint for floral organ development in barley. Poster session presented at the meeting of International Plant and Animal Genome Conference (PAG). Perth, Australia.
2018 Selva, C., Tucker, M. R., Baumann, U., & Whitford, R. (2018). Floral development in barley: characterization of multiovary mutants. Poster session presented at the meeting of International Congress on Sexual Plant Reproduction. Japan.
2017 Selva, C., Tucker, M. R., Baumann, U., & Whitford, R. (2017). The benefits of sterility: characterizing multiovary mutants for hybrid seed production. Poster session presented at the meeting of Combined biosciences - ComBio. Australia.
2015 Liu, H., Searle, I., Watson-Haigh, N., Baumann, U., Mather, D., Able, A., & Able, J. (2015). Identification of differentially expressed miRNAs and their targets in durum wheat during water deficit stress. Poster session presented at the meeting of 9th International Wheat Conference. Sydney, Australia..

Year Citation
2010 Baumann, U. (2010). US 20100281583 A1, Boron transporter. USA.

Year Citation
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.
- Chidzanga, C., Garcia, M., Baumann, U., Fleury, D., Chalmers, K., Kalambettu, P., & Watanabe, S. (n.d.). OzNAM raw phenotype and genotype data sets.
DOI
- Fruzangohar, M., Kalashyan, E., Kalambettu, P., Ens, J., Wiebe, K., Pozniak, C., . . . Baumann, U. (n.d.). Durum Exome Capture Reference (DECaR).
DOI
- Berger, B., Tucker, M., Baumann, U., Kalashyan, E., Schwerdt, J., Chalmers, K., . . . Shaw, P. D. (n.d.). OzBarley: genotypic and expression data of the OzBarley elite panel.
DOI
- Berger, B., Tucker, M., Baumann, U., Kalashyan, E., Schwerdt, J., Chalmers, K., . . . Shaw, P. D. (n.d.). OzBarley: phenotypic data of OzBarley elite panel collected in greenhouse trials at Australian Plant Phenomics Network, University of Adelaide.
DOI

Year Citation
- Garcia, M., Eckermann, P., Haefele, S., Satija, S., Sznajder, B., Timmins, A., . . . Fleury, D. (n.d.). Phenotypic and genotypic data from a wheat diversity panel.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Xiaoyan-54 WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Alsen WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Excalibur WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Gladius WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). H-45 WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). RAC-875 WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Volcani-DD-1 WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Wyalkatchem WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Yitpi WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Kukri WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Pastor WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Westonia WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Chara,AUS WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Drysdale WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). Baxter WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
- Watson-Haigh, N., Suchecki, R., Garcia, M. D. O. S., Kalashyan, E., & Baumann, U. (n.d.). AC-Barrie WGS vs IWGSC RefSeq v1.0 Genome Assembly.
DOI
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

Date Role Research Topic Program Degree Type Student Load Student Name
2025 Co-Supervisor Molecular mechanism of root response to compacted soil in cereals Doctor of Philosophy Doctorate Full Time Miss Ciara Marie Danes
2025 Co-Supervisor Molecular mechanism of root response to compacted soil in cereals Doctor of Philosophy Doctorate Full Time Miss Ciara Marie Danes
2023 Co-Supervisor Improving doubled haploid production in Brassica napus L. by better understanding chromosomal doubling and embryo initiation. Doctor of Philosophy Doctorate Part Time Miss Kaat Lut K Devriendt
2023 Co-Supervisor Improving doubled haploid production in Brassica napus L. by better understanding chromosomal doubling and embryo initiation. Doctor of Philosophy Doctorate Full Time Miss Kaat Lut K Devriendt

Date Role Research Topic Program Degree Type Student Load Student Name
2020 - 2023 Co-Supervisor Inter-vine Signalling via Plant Volatiles Doctor of Philosophy Doctorate Full Time Miss Joanah Midzi
2019 - 2022 Co-Supervisor Nested Association Mapping of wheat yield under Australian drought and heat conditions Doctor of Philosophy Doctorate Full Time Miss Charity Chidzanga
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 Dr 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

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

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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