Julian Schwerdt

Julian Schwerdt
School of Agriculture, Food and Wine
Faculty of Sciences

I'm a computational biologist and began my scientific career as a software developer building biological databases in the UK. I returned to Australia to take up a position at the South Australian Partnership for Advanced Computing (SAPAC) as a Bioinformatics Specialist. This involved a close association with the Australian Centre for Plant Function Genomics (ACPFG) which in turn lead to a Ph.D and post-doctoral position at the ACPFG and the ARC CoE for Plant Cell Walls. My interests are in protein family evolution, coevolution networks and recently biological applications for machine learning.

Connect With Me

Julian Schwerdt

I'm a computational biologist and began my scientific career as a software developer building biological databases in the UK. I returned to Australia to take up a position at the South Australian Partnership for Advanced Computing (SAPAC) as a Bioinformatics Specialist. This involved a close association with the Australian Centre for Plant Function Genomics (ACPFG) which in turn lead to a Ph.D and post-doctoral position at the ACPFG and the ARC CoE for Plant Cell Walls. My interests are in protein family evolution, coevolution networks and recently biological applications for machine learning.

My Ph.D research focused on the evolutionary history and dynamics of the cellulose synthase superfamily in the angiosperms (flowering plants). This aimed to explore how a family of proteins have evolved to produce the diversity of carbohydrates we consume for food, fuel and materials. We reconstructed molecular sequence evolution to infer when protein families evolved and how natural selection has shaped this process. The association of this snippet of evolution with other observed changes such as morphology and protein structural elements can now be used to predict protein function and other characteristics of a stubbornly inscrutable protein superfamily.

Tree

As a postdoctoral researcher at the ARC Centre of Excellence in Plant Cell Walls, my present research focuses on understanding the synthesis and interactions of cell wall carbohydrates and their evolution in the context of plant survival strategies and interactions with fungal pathogens. I use computational methods related to phylogenetics, genomics, transcriptomics, and homology modeling. My currents projects include:

  • Plant genome assembly
  • Phylogenetics of cell wall associated enzyme pathway
  • Reconstructing the sequences of ancestral proteins
  • Coevolution network analysis
  • Applications of machine learning methodologies to phenotyping

Appointments

Date Position Institution name
2017 Post-doctoral researcher ARC CoE Plant Cell Walls
2012 Bioinformatician ARC CoE Plant Cell Walls
2004 - 2008 Bioinformatics Computer Specialist South Australian Partnership for Advanced Computing

Keywords

Bioinformatics

Journals

Date Citation
2017 Chowdhury,J, Lück,S, Rajaraman,J, Douchkov,D, Shirley,N, Schwerdt,J, Schweizer,P, Fincher,G, Burton,R, Little,A et al, 2017, Altered expression of genes implicated in xylan biosynthesis affects penetration resistance against powdery mildew, Frontiers in Plant Science, 8, 445-1-445-12 10.3389/fpls.2017.00445
2016 Paull,R, Chen,N, Ming,R, Wai,C, Shirley,N, Schwerdt,J, Bulone,V, 2016, Carbon Flux and Carbohydrate Gene Families in Pineapple, Tropical Plant Biology, 9, 3, 200-213 10.1007/s12042-016-9176-1
2016 Dimitroff,G, Little,A, Lahnstein,J, Schwerdt,J, Srivastava,V, Bulone,V, Burton,R, Fincher,G, 2016, (1,3;1,4)-β-glucan biosynthesis by the CSLF6 enzyme: position and flexibility of catalytic residues influence product fine structure, Biochemistry, 55, 13, 2054-2061 10.1021/acs.biochem.5b01384
2016 Marcotuli,I, Houston,K, Schwerdt,J, Waugh,R, Fincher,G, Burton,R, Blanco,A, Gadaleta,A, 2016, Genetic diversity and genome wide association study of β-glucan content in tetraploid wheat grains, PLoS One, 11, 4, e0152590-1-e0152590-15 10.1371/journal.pone.0152590
2016 Sato,K, Yamane,M, Yamaji,N, Kanamori,H, Tagiri,A, Schwerdt,J, Fincher,G, Matsumoto,T, Takeda,K, Komatsuda,T et al, 2016, Alanine aminotransferase controls seed dormancy in barley, Nature Communications, 7, - 10.1038/ncomms11625
2015 Ermawar,R, Collins,H, Byrt,C, Henderson,M, O'Donovan,L, Shirley,N, Schwerdt,J, Lahnstein,J, Fincher,G, Burton,R et al, 2015, Genetics and physiology of cell wall polysaccharides in the model C₄ grass, Setaria viridis spp, BMC Plant Biology, 15, 1, 236-1-236-18 10.1186/s12870-015-0624-0
2015 Ermawar,R, Collins,H, Byrt,C, Betts,N, Henderson,M, Shirley,N, Schwerdt,J, Lahnstein,J, Fincher,G, Burton,R et al, 2015, Distribution, structure and biosynthetic gene families of (1,3;1,4)-β-glucan in Sorghum bicolor, Journal of Integrative Plant Biology, 57, 4, 429-445 10.1111/jipb.12338
2015 Schwerdt,J, MacKenzie,K, Wright,F, Oehme,D, Wagner,J, Harvey,A, Shirley,N, Burton,R, Schreiber,M, Halpin,C et al, 2015, Evolutionary dynamics of the cellulose synthase gene superfamily in grasses, Plant Physiology, 168, 3, 968-983 10.1104/pp.15.00140
2015 Wong,S, Shirley,N, Little,A, Khoo,K, Schwerdt,J, Fincher,G, Burton,R, Mather,D, 2015, Differential expression of the HvCslF6 gene late in grain development may explain quantitative differences in (1,3;1,4)-β-glucan concentration in barley, Molecular Breeding, 35, 1, 20-1-20-12 10.1007/s11032-015-0208-6
2014 Schreiber,M, Wright,F, MacKenzie,K, Hedley,P, Schwerdt,J, Little,A, Burton,R, Fincher,G, Marshall,D, Waugh,R et al, 2014, The barley genome sequence assembly reveals three additional members of the CslF (1,3;1,4)-β-glucan synthase gene family, PLoS One, 9, 3, e90888-1-e90888-9 10.1371/journal.pone.0090888
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 10.1093/bioinformatics/btn486

2008 - Grains Research & Development Corporation GRS Post-graduate scholarship.

2010 to present, Master of Plant Biotechnology (bioinformatics course)

The sequencing and assembly of Plantago ovata. Pastor Juliian, 2014 Honours project

The de novo sequencing, assembly and annotation of a draft genome of the marine microalga, Tetraselmis cordiformis. Jake Parker, 2013 Honours project.

 

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