Dr. Wayne Xu
1. Lead a bioinformatics team for Bioinformatics Research Support
2. Research in genomics and bioinformatics for genome, transcriptome, proteomics, epigentics, genomic variations, gene regulation, trait associtation studies.
Current research and/or projects
- Targeted and useful genomics for barley and oat (TUGOAT): funded (2019-2024) by Agriculture and Agri-Food Canada (AAFC) project J-002373 in partnership with Génome Québec and the National Barley Cluster led by the Barley Council of Canada (BCC) through the Canadian Agriculture Partnership (CAP).
- Crop Rotation Affects Disease Suppressive Soil Microbiomes: funded (2021-2023) by Ag Action Manitoba Program – Research and Innovation.
Research and/or project statements
- Genome assembly: Using Illumina paired-end reads, long mate-pair reads, PacBio sequences, 10X chromium linked read libraries, and chromosome conformation capture sequencing (Hi-C) to assemble genome to chromosome pseudomolecules.
- Transcriptome differentiation studies: using RNA-seq for transcriptome differentiation analyses
- Genomic variation studies: using whole genome sequencing (WGS), genotype-by-sequencing (GBS), and whole exome capture (WEC) sequencing to analyze SNPs/INDELs.
- Genome-wise association study (GWAS): Developing AI learning models for wheat and barley GWAS to aid in genomic selection (GS) and genomic edit (GE).
- Microbiome: Using whole genome sequencing or 16S sequencing for microbiota and microbiome studies.
- Gene functional analysis and annotation: Using database and computational tools for gene, protein, and genome annotations.
Professional activities / interests
- Bioinformatics
- Journal review
- Grant review
- Teaching
Key publications
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Islam, M. N., Mourita, T., Oghenekaro, A.O., Kutcher, H. R., Harris, L.J., Overy, D. P., Turkington, T. K., Xu, W., and Wang, X. (2021) Genotyping by sequencing analysis of Fusarium poae field populations affecting small grain cereals in Canada, Tri-Society Virtual Conference, July 5-9 (oral).
2021 - View publication details
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Wayne Xu, James R Tucker, Wubishet A Bekele, Frank M You, Yong-Bi Fu, Raja Khanal, Zhen Yao, Jaswinder Singh, Brian Boyle, Aaron D Beattie, François Belzile, Martin Mascher, Nicholas A Tinker, Ana Badea, Genome Assembly of the Canadian Two-row Malting Barley Cultivar AAC Synergy, G3 Genes|Genomes|Genetics, 2021;, jkab031, https://doi.org/10.1093/g3journal/jkab031
2021 - View publication details
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J. R. Tucker, A. Badea, W. G. Legge, S. Maiti, Z. Yao, W. Xu, and W.G. D. Fernando. 2020. Transcriptomic analysis of a low-DON, in vitro selected, two-row malting barley variety in response to infection by multiple chemotypes of Fusarium graminearum. 2020 National Fusarium Head Blight Forum, December 2020, virtual. Poster#36.
2020 - View publication details
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Yao, Z., You, F.M., N'Diaye, A., Knox, R.E., McCartney, C., Hiebert, C.W., Pozniak, C., Xu, W. (2020). Evaluation of variant calling tools for large plant genome re-sequencing. BMC Bioinformatics, [online] 21(1), http://dx.doi.org/10.1186/s12859-020-03704-1
2020 - View publication details
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Borrego-Benjumea, A., Carter, A., Tucker, J.R., Yao, Z., Xu, W., Badea, A. (2020). Genome-wide analysis of gene expression provides new insights into waterlogging responses in Barley (Hordeum vulgare L.). Plants, [online] 9(2), http://dx.doi.org/10.3390/plants9020240
2020 - View publication details
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Rampitsch M, Huang M, Zhen Y, Radovanovic N, Xu W, Rampitsch C, Bykova NV (2019). Profiling of histone acetylation and methylation marks associated with embryo and aleurone tissue-specific epigenetic regulation of seed dormancy in wheat. ASMS Conference on Mass Spectrometry and Allied Topics. Atlanta, Georgia, June 2 - 6, 2019. Poster presentation, Abstract ID number: 299846.
2019 - View publication details