Frank You

Image Frank You
Research Scientist

Research in genomics and bioinformatics of crops, especially wheat and flax. Primarily working on plant bioinformatics, quantitative genetics and statistical genomics, genome sequencing, genome evolution, and software tool and database development

Current research and/or projects

  • Genetic and epigenetic variants of Canadian cereal crops for breeding and functional analysis; GRDI project.

  • Integrated genomics, plant pathology and breeding research for improvement of Fusarium Head Blight resistance in Canadian cereals; WGRF project.

  • Characterization of rust resistance genes of flax; ADF project.

  • Early-maturing dry bean variety and germplasm development for Manitoba and Western Canada; CAP pulse cluster.

  • Pre-breeding platform for Canadian wheat improvement; CAP wheat cluster.

  • Genomics and molecular markers to identify resistance genes in flax; CAP project.

  • 4DWheat: diversity, domestication, discovery and delivery; Genome Canada and AAFC project.

  • Targeted and useful genomics for barley and oat; AAFC project.

 

Research and/or project statements

  • Development of a new generation of flax refeence genome.
  • QTL identification and gene mining for the traits of inportance, especially seed yield and disease resistance in flax and wheat.
  • Development of a genomic selection strategy to maximize prediction accuracy and reducing selection cost through minimizing the number of markers.
  • Development of bioinfomatics tools amd databases to facilitate analysis of a large amount of genomic and phenotypic data and gene mining.

Education and awards

  • Ph.D. Plant Genetics and Breeding (Statistical Genetics), Nanjing Agricultural University, 1989
  • MSc Plant Genetics and Breeding (Statistical Genetics), Nanjing Agricultural University, 1985
  • BSc Computer Science, University of Manitoba, 1999
  • BSc Agronomy, Sichuan Agricultural University, 1982

Key publications

  1. You FM, Xu W, Tucker JR, Khanal R, Beattie A, Brar G, Fu Y-B, Zheng C, Malti S, Shah K, Liton U, Holden S, Yao Z, Singh J, Boyle B, Belzile F, Mascher M, Tinker N, Bekele W, and Badea A. Reference-level genome assemblies and comparative analysis of five representative Canadian barley cultivars. 2024 Barley Symposium – From the Ground Up. February 26-27, Saskatoon, Canada (Oral talk)

    2024 - View publication details

  2. Khadka B, Chawla HS, Edwards T, Lévesque-Lemay M, Zheng C, You FM, Pozniak CJ, Cloutier S (2024) Transcriptome analysis and genome annotation of diploid Aegilops species. Proc 31th Plant and Animal Genome Conference, San Diego, CA, Jan 13-17, PE0419 (poster)

    2024 - View publication details

  3. You FM, Zheng C, Edwards T, Jia B, Li P, McCallum B, Pozniak CJ, Cloutier S (2023) Quantitative trait loci and candidate genes conferring leaf rust resistance in synthetic hexaploid wheat derived populations. Proc 5th Canadian Wheat Symposium, Vancouver, Nov 13-16

    2023 - View publication details

  4. Khadka B, Chawla HS, Edwards T, Lévesque-Lemay M, Zheng C, You FM, Pozniak CJ, Cloutier S (2023) Transcriptome analysis and genome annotation of diploid Aegilops species. Proc 5th Canadian Wheat Symposium, Vancouver, Nov 13-16, P17

    2023 - View publication details

  5. Toward evidence that homologs of RPW8 act through salicylic acid signaling in powdery mildew resistance in flax
    Vanessa Clemis1,2, Mohsin Zaidi, Frank You3, Chunfang Zheng3, Sylvie Cloutier3, and Bourlaye Fofana1
    1Charlottetown Research and Development Centre, Agriculture and Agri-Food Canada, 440 University Avenue, Charlottetown, Prince Edward Island, C1A 4N6, Canada
    2University of Prince Edward Island, 550 University Avenue, Charlottetown, Prince Edward Island, C1A 4P3, Canada
    3Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Avenue, Ottawa, Ontario, K1A 0C6, Canada
    *bourlaye.fofana@agr.gc.ca
    Powdery mildew (PM) is an obligate biotrophic fungus (Podosphaera lini) causing high yield loss to flax (Linum usitatissimum L.). To date, no PM resistance genes have been fully functionally characterized. Using GWAS, we identified a locus harboring three flax homologs of the Arabidopsis RPW8 genes that confer broad-spectrum resistance to powdery mildew. Here, we characterized the gene expression profile of the three RPW8 candidate genes following PM inoculation. The data showed that, similar to RPW8.2 acting through the salicylic acid (SA) signaling pathway, the RPW8 homologs Lus10000835 and Lus10000836 are highly expressed in resistant flax lines compared to the suscpetible lines. In contrast, the flax RPW8 homolog Lus10009328 was highly expressed in the susceptible lines, suggesting a different signaling pathway from the other two homologs. RPW8.1 has been shown to activate ethylene signaling through aminocyclopropane-1-carboxylate oxidase gene isoform 4 (ACO4) and, this elevated ethylene negatively regulates the expression of RPW8.1, thereby attenuating its mediated-cell death and disease resistance when no disease is present to avoid unnecessary defense responses. We conclude that PM resistance induced by RPW8 in flax may mainly be activated through SA signaling pathways, and perhaps similarly to the ethylene signaling in Arabidopsis.

    2023 - View publication details

  6. Cloutier S, Zheng C, Rashid K, Molina O, Edwards T, Lévesque-Lemay, Froese S, Jackle K, House M, Young L, Booker H, Ta’ran B, You F (2023) Fusarium wilt resistance in flax is controlled by a major gene on chromosome 1. Flax Genomics Workshop, Proc 30th Plant and Animal Genome Conference, San Diego, CA, Jan 13-18 (oral – invited)

    2023 - View publication details

  7. You FM, Cloutier S (2023) Multi-trait multi-model QTL mapping strategies in flax. Proc 30th Plant and Animal Genome Conference, San Diego, CA, Jan 13-18 (Oral presentation)

    2023 - View publication details

  8. Vasudevan A, Zheng C, Ens J, Pozniak CJ, You FM, Cloutier S (2023) SHW × elite wheat backcross introgression lines: Is there any bias in retention of SHW genome fraction during pre-breeding? Proc 30th Plant and Animal Genome Conference, San Diego, CA, Jan 13-18, PO0521 (poster)

    2023 - View publication details

  9. Cloutier S, Sertse D, Ravichandran S, Duguid S, Soto-Cerda BJ, You FM (2022) Gene banks for crop improvement under climate change: a case study of flax drought. ProciNorte-NORGEN – Task Force on Genetic Resouces, Nov 15, Virtual (oral – invited)

    2022 - View publication details

  10. Agricultural Innovations (Volume V) https://collab.agr.gc.ca/br-dg/stb-dgst/Documents/Annual%20Publications/Agricultural%20Innovations%20Vol%20V.pdf

    2022 - View publication details

  11. Cloutier S, Fedak G, Fatima F, Bartaula S, McCallum B, Henriquez MA, Blackwell B, Aboukhaddour R, Foster A, Hiebert C, Humphreys G, McCartney C, Pozniak C, You F (2022) Tapping into wild relatives to improve wheat. ProciNorte Disease Task Force Webinars - Wheat & Grapes: Mitigating the effects brought on by climate change, Sept 13 & 15, Virtual (oral – invited)

    2022 - View publication details

  12. Khadka B, Lévesque-Lemay M, Edwards T, Zheng C, Ens J, Chawla HS, You FM, Pozniak CJ, Cloutier S (2022) Transcriptome analysis and annotation of multiple Aegilops genomes. 2nd International Wheat Congress, Beijing, China, Sept 12-16 (e-poster)

    2022 - View publication details

  13. Cloutier S, Fedak G, Fatima F, Bartaula S, McCallum B, Henriquez MA, Blackwell B, Aboukhaddour R, Foster A, Hiebert C, Humphreys G, Mccartney C, Pozniak C, You F (2022) Wheat Pre-breeding: the struggle(s) and potential. Proc. 37th Plant Sciences Graduate Students’ Symposium 2022, March 4-5, Virtual (oral)

    2022 - View publication details

  14. Cloutier S, Fedak G, Fatima F, Bartaula S, McCallum B, Henriquez MA, Blackwell B, Aboukhaddour R, Foster A, Hiebert C, Humphreys G, McCartney C, Pozniak C, You F (2021) The challenges and promises of pre-breeding. Can Soc Plant Biol – Eastern Regional Meeting. Virtual, Nov 27 (oral keynote plenary)

    2021 - View publication details

  15. Suo, R.Z., Mwaniki, A., Zheng, C.F., Jia, B., You, F.M., Conner, R.L., Xu, W.1 and Hou, A. QTL identification of seed hardness traits in a diverse genetic panel of common bean (Phaseolus vulgaris). Poster presentation. Bean Improvement Cooperative Biennial Meeting (Virtual), November 2-3, 2021.

    2021 - View publication details

  16. Xu, W., Tucker, J.R., Bekele, W.A., You, F.M., Fu, Y.B., Khanal, R., Yao, Z., Singh, J., Boyle, B., Beattie, A.D., Belzile, F., Mascher, M., Tinker, N.A., Badea, A. (2021). Genome assembly of the canadian two-row malting barley cultivar AAC synergy. G3: Genes, Genomes, Genetics, [online] 11(4), http://dx.doi.org/10.1093/g3journal/jkab031

    2021 - View publication details

  17. Sertse, D., You, F.M., Ravichandran, S., Soto-Cerda, B.J., Duguid, S., Cloutier, S. (2021). Loci harboring genes with important role in drought and related abiotic stress responses in flax revealed by multiple GWAS models. Theoretical and Applied Genetics (TAG), [online] 134(1), 191-212. http://dx.doi.org/10.1007/s00122-020-03691-0

    2021 - View publication details

  18. Khan, N., You, F.M., Datla, R., Ravichandran, S., Jia, B., Cloutier, S. (2020). Genome-wide identification of ATP binding cassette (ABC) transporter and heavy metal associated (HMA) gene families in flax (Linum usitatissimum L.). BMC Genomics, [online] 21(1), http://dx.doi.org/10.1186/s12864-020-07121-9

    2020 - View publication details

  19. Fatima, F., McCallum, B.D., Pozniak, C.J., Hiebert, C.W., McCartney, C.A., Fedak, G., You, F.M., Cloutier, S. (2020). Identification of New Leaf Rust Resistance Loci in Wheat and Wild Relatives by Array-Based SNP Genotyping and Association Genetics. Frontiers in Plant Science, [online] 11 http://dx.doi.org/10.3389/fpls.2020.583738

    2020 - View publication details

  20. 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

Research facility

960 Carling Avenue
Ottawa, ON K1A 0C6
Canada

Affiliations

Guest professor of Nanjing Agricultural University

Adjunct professor of University of Manitoba

Language

English

Other languages

Mandarin/Chinese