Frank You

Image Frank You
Chercheur Scientifique

Recherche en génomique et en bio-informatique des cultures, en particulier le blé et le lin. Principaux domaines d’expertise : bio-informatique des végétaux, génétique quantitative et génomique statistique, séquençage génomique, évolution des génomes et conception d’outils logiciels et de bases de données.

Agriculture et Agroalimentaire Canada

Recherche et / ou projets en cours

  • Variantes génétiques et épigénétiques des cultures de céréales canadiennes pour la production et l’analyse fonctionnelle; projet de l’IRDG

  • Recherche en matière de génomique intégrée, de phytopathologie et de sélection en vue de l’amélioration de la résistance des céréales canadiennes à la fusariose de l’épi; projet de la WGRF

  • Caractérisation des gènes de la résistance à la rouille chez le lin; projet de l’ADF

  • Mise au point de variétés et de matériel génétique de haricots secs à maturation précoce pour le Manitoba et l’Ouest canadien; grappe des légumineuses du PCA.

  • Plateformes de préreproduction pour l’amélioration du blé canadien; grappe du blé du PCA

  • Marqueurs génomiques et moléculaires permettant d’identifier les gènes de résistance chez le lin; projet du PCA

  • Projet 4DWheat : diversité, découverte, design et diffusion; projet de Génome Canada et d’AAC

  • Étude de la génomique de l’avoine et de l’orge pour trouver des traits spécifiques et utilitaires; projet d’AAC

 

Énoncés de recherches/projets

  • Mise au point d’une nouvelle génération de génomes de référence pour le lin

  • Identification des QTL et exploration génomique en vue de déterminer les caractéristiques importantes, en particulier au chapitre du rendement des semences et de la résistance aux maladies, du blé et du lin

  • Mise au point d’une stratégie de développement génomique en vue de maximiser l’exactitude des prévisions et diminuer le coût de la sélection en réduisant le nombre de marqueurs

  • Conception d’outils et de bases de données bio-informatiques pour faciliter l’analyse de grandes quantités de données génomiques et phénotypiques, ainsi que l’exploration génomique.

Prix et études

  • Ph. D., Génétique et amélioration des végétaux, Université agricole de Nanjing, 1989

  • M.Sc., Génétique et amélioration des végétaux (génétique statistique), Université agricole de Nanjing, 1985

  • B.Sc., Sciences informatiques, Université du Manitoba, 1999

  • B.Sc., Agronomie, Université agricole du Sichuan, 1982

Principales publications

  • Huang, D., Q. Zheng, T. Melchkart, Y. Bekkaoui, D.J.F. Konkin, S. Kagale, M. Martucci, F.M. You, M. Clarke, N.M. Adamski, C. Chinoy, A. Steed, C.A. McCartney, A.J. Cutler, P. Nicholson, and J.A. Feurtado, 2020: Dominant inhibition of awn development by a putative zinc-finger transcriptional repressor expressed at the B1 locus in wheat. New Phytol 225, 340-355.
  • Soto-Cerda, B.J., S. Cloutier, H.A. Gajardo, Aravena, R. Quian, and F.M. You, 2020: Drought response of flax accessions and identification of quantitative trait nucleotides (QTNs) governing agronomic and root traits by genome-wide association analysis. Mol Breed 40, 24.
  • Cloutier, S., F.M. You, and B.J. Soto-Cerda, 2019: Linum Genetic Markers, Maps, and QTL Discovery, In: C. Cullis, (ed.) Genetics and Genomics of Linum. Plant Genetics and Genomics: Crops and Models, 97-117, Vol. 23. Springer, Cham.
  • He, L., J. Xiao, K.Y. Rashid, G. Jia, P. Li, Z. Yao, X. Wang, S. Cloutier, and F.M. You, 2019a: Evaluation of genomic prediction for pasmo resistance in flax. Int J Mol Sci 20.
  • He, L., J. Xiao, K.Y. Rashid, Z. Yao, P. Li, G. Jia, X. Wang, S. Cloutier, and F.M. You, 2019b: Genome-wide association studies for pasmo resistance in flax (Linum usitatissimum L.). Front Plant Sci 9, 1982.
  • Saha, D., R.S. Rana, S. Das, S. Datta, J. Mitra, S.J. Cloutier, and F.M. You, 2019: Genome-wide regulatory gene-derived SSRs reveal genetic differentiation and population structure in fiber flax genotypes. J Appl Genet 60, 13-25.
  • Sertse, D., F.M. You, S. Ravichandran, and S. Cloutier, 2019a: The complex genetic architecture of early root and shoot traits in flax revealed by genome-wide association analyses. Front Plant Sci 10, 1483.
  • Sertse, D., F.M. You, S. Ravichandran, and S. Cloutier, 2019b: The genetic structure of flax illustrates environmental and anthropogenic selections that gave rise to its eco-geographical adaptation. Mol Phylogenet Evol 137, 22-32.
  • You, F.M., and S. Cloutier, 2019: Assembly of the Flax Genome into Chromosomes, In: J. Al-Khayri, S. Jain and D. Johnson, (eds.) Advances in Plant Breeding Strategies: Industrial and Food Crops 73-87. Springer, Cham.
  • You, F.M., S. Cloutier, K.Y. Rashid, and S.D. Duguid, 2019: Flax (Linum usitatissimum L.) Genomics and Breeding, In: J. Al-Khayri, S. Jain and D. Johnson, (eds.) Advances in Plant Breeding Strategies: Industrial and Food Crops 277-317. Springer, Cham.
  • Zhu, T., L. Wang, F.M. You, J.C. Rodriguez, K.R. Deal, L. Chen, J. Li, S. Chakraborty, B. Balan, C.Z. Jiang, P.J. Brown, C.A. Leslie, M.K. Aradhya, A.M. Dandekar, P.E. McGuire, D. Kluepfel, J. Dvorak, and M.C. Luo, 2019: Sequencing a Juglans regia x J. microcarpa hybrid yields high-quality genome assemblies of parental species. Hortic Res 6, 55.
  • Dvorak, J., L. Wang, T. Zhu, C.M. Jorgensen, K.R. Deal, X. Dai, M.W. Dawson, H.G. Muller, M.C. Luo, R.K. Ramasamy, H. Dehghani, Y.Q. Gu, B.S. Gill, A. Distelfeld, K.M. Devos, P. Qi, F.M. You, P.J. Gulick, and P.E. McGuire, 2018: Structural variation and rates of genome evolution in the grass family seen through comparison of sequences of genomes greatly differing in size. Plant J 95, 487-503.
  • Saha, D., R.S. Rana, S. Das, S. Datta, J. Mitra, S.J. Cloutier, and F.M. You, 2018: Genome-wide regulatory gene-derived SSRs reveal genetic differentiation and population structure in fiber flax genotypes. J Appl Genet 60, 13-25.
  • Sandhu, K.S., F.M. You, R.L. Conner, P.M. Balasubramanian, and A. Hou, 2018: Genetic analysis and QTL mapping of the seed hardness trait in a black common bean (Phaseolus vulgaris) recombinant inbred line (RIL) population. Mol Breed 38, 34.
  • Soto-Cerda, B.J., S. Cloutier, R. Quian, H.A. Gajardo, M. Olivos, and F.M. You, 2018: Genome-wide association analysis of mucilage and hull content in flax (Linum usitatissimum L.) seeds. Int J Mol Sci 19.
  • You, F.M., J. Xiao, P. Li, Z. Yao, G. Jia, L. He, S. Kumar, B. Soto-Cerda, S.D. Duguid, H.M. Booker, K.Y. Rashid, and S. Cloutier, 2018a: Genome-wide association study and selection signatures detect genomic regions associated with seed yield and oil quality in flax. Int J Mol Sci 19.
  • You, F.M., J. Xiao, P. Li, Z. Yao, G. Jia, L. He, T. Zhu, M.C. Luo, X. Wang, M.K. Deyholos, and S. Cloutier, 2018b: Chromosome-scale pseudomolecules refined by optical, physical and genetic maps in flax. Plant J 95, 371-384.
  • Zhao, K., J. Xiao, Y. Liu, S. Chen, C. Yuan, A. Cao, F.M. You, D. Yang, S. An, H. Wang, and X. Wang, 2018: Rht23 (5Dq') likely encodes a Q homeologue with pleiotropic effects on plant height and spike compactness. Theor Appl Genet 131, 1825-1834.
  • Fofana, B., K. Ghose, J. McCallum, F.M. You, and S. Cloutier, 2017: UGT74S1 is the key player in controlling secoisolariciresinol diglucoside (SDG) formation in flax. BMC Plant Biol 17, 35.
  • Fu, Y.-B., M.-H. Yang, C. Horbach, D. Kessler, A. Diederichsen, F.M. You, and H. Wang, 2017: Patterns of SSR variation in bread wheat (Triticum aestivum L.) seeds under ex situ genebank storage and accelerated ageing. Genet Res Crop Evol 64, 277-290.
  • Kassa, M.T., F.M. You, C.W. Hiebert, C.J. Pozniak, P.R. Fobert, A.G. Sharpe, J.G. Menzies, D.G. Humphreys, N. Rezac Harrison, J.P. Fellers, B.D. McCallum, and C.A. McCartney, 2017: Highly predictive SNP markers for efficient selection of the wheat leaf rust resistance gene Lr16. BMC Plant Biol 17, 45.
  • Luo, M.C., Y.Q. Gu, D. Puiu, H. Wang, S.O. Twardziok, K.R. Deal, N. Huo, T. Zhu, L. Wang, Y. Wang, P.E. McGuire, S. Liu, H. Long, R.K. Ramasamy, J.C. Rodriguez, S.L. Van, L. Yuan, Z. Wang, Z. Xia, L. Xiao, O.D. Anderson, S. Ouyang, Y. Liang, A.V. Zimin, G. Pertea, P. Qi, J.L. Bennetzen, X. Dai, M.W. Dawson, H.G. Muller, K. Kugler, L. Rivarola-Duarte, M. Spannagl, K.F.X. Mayer, F.H. Lu, M.W. Bevan, P. Leroy, P. Li, F.M. You, Q. Sun, Z. Liu, E. Lyons, T. Wicker, S.L. Salzberg, K.M. Devos, and J. Dvorak, 2017: Genome sequence of the progenitor of the wheat D genome Aegilops tauschii. Nature 551, 498-502.
  • Ren, J., L. Chen, X. Jin, M. Zhang, F.M. You, J. Wang, V. Frenkel, X. Yin, E. Nevo, and D. Sun, 2017: Solar radiation-associated adaptive SNP genetic differentiation in wild emmer wheat, Triticum dicoccoides. Front Plant Sci 8, 258.
  • You, F.M., G. Jia, J. Xiao, S.D. Duguid, K.Y. Rashid, H.M. Booker, and S. Cloutier, 2017: Genetic variability of 27 traits in a core collection of flax (Linum usitatissimum L.). Front Plant Sci 8, 1636.
  • Hiebert, C.W., M.T. Kassa, C.A. McCartney, F.M. You, M.N. Rouse, P. Fobert, and T.G. Fetch, 2016: Genetics and mapping of seedling resistance to Ug99 stem rust in winter wheat cultivar Triumph 64 and differentiation of SrTmp, SrCad, and Sr42. Theor Appl Genet 129, 2171-2177.
  • Huang, D., Q. Zheng, T. Melchkart, Y. Bekkaoui, D.J.F. Konkin, S. Kagale, M. Martucci, F.M. You, M. Clarke, N.M. Adamski, C. Chinoy, A. Steed, C.A. McCartney, A.J. Cutler, P. Nicholson, and J.A. Feurtado, 2016: Dominant inhibition of awn development by a putative zinc-finger transcriptional repressor expressed at the B1 locus in wheat. New Phytol 225, 340-355.
  • Kassa, M.T., S. Haas, E. Schliephake, C. Lewis, F.M. You, C.J. Pozniak, I. Kramer, D. Perovic, A.G. Sharpe, P.R. Fobert, M. Koch, I.L. Wise, P. Fenwick, S. Berry, J. Simmonds, D. Hourcade, P. Senellart, L. Duchalais, O. Robert, J. Forster, J.B. Thomas, W. Friedt, F. Ordon, C. Uauy, and C.A. McCartney, 2016a: A saturated SNP linkage map for the orange wheat blossom midge resistance gene Sm1. Theor Appl Genet 129, 1507-17.
  • Kassa, M.T., F.M. You, T.G. Fetch, P. Fobert, A. Sharpe, C.J. Pozniak, J.G. Menzies, M.C. Jordan, G. Humphreys, T. Zhu, M.C. Luo, C.A. McCartney, and C.W. Hiebert, 2016b: Genetic mapping of SrCad and SNP marker development for marker-assisted selection of Ug99 stem rust resistance in wheat. Theor Appl Genet 129, 1373-1382.
  • Li, P., X. Quan, G. Jia, J. Xiao, S. Cloutier, and F.M. You, 2016: RGAugury: a pipeline for genome-wide prediction of resistance gene analogs (RGAs) in plants. BMC Genomics 17, 852.
  • Muñoz-Amatriaín, M., H. Mirebrahim, P. Xu, S.I. Wanamaker, M. Luo, H. Alhakami, M. Alpert, I. Atokple, B.J. Batieno, and O. Boukar, 2016: Genome resources for climate-resilient cowpea, an essential crop for food security. Plant J 89, 1042-1054.
  • Wang, Y., V.K. Tiwari, N. Rawat, B.S. Gill, N. Huo, F.M. You, D. Coleman-Derr, and Y.Q. Gu, 2016a: GSP: a web-based platform for designing genome-specific primers in polyploids. Bioinformatics 32, 2382-3.
  • Wang, Y., L. Xu, R. Thilmony, F.M. You, Y.Q. Gu, and D. Coleman-Derr, 2016b: PIECE 2.0: an update for the plant gene structure comparison and evolution database. Nucleic Acids Res 45, 1015-1020.
  • Xiao, J., X. Chen, Z. Xu, J. Guo, Z. Wu, H. Wang, X. Zhu, M. Nie, T. Bie, and S. Cheng, 2016a: Validation and diagnostic marker development for a genetic region associated with wheat yellow mosaic virus resistance. Euphytica 211, 91.
  • Xiao, J., M.K. Sekhwal, P. Li, R. Ragupathy, S. Cloutier, X. Wang, and F.M. You, 2016b: Pseudogenes and their genome-wide prediction in plants. Int J Mol Sci 17.
  • You, F., S.D. Duguid, I. Lam, S. Cloutier, K.Y. Rashid, and H. Booker, 2016a: Pedigrees and genetic base of flax cultivars registered in Canada. Can J Plant Sci 96, 837-852.
  • You, F.M., H.M. Booker, S.D. Duguid, G. Jia, and S. Cloutier, 2016b: Accuracy of genomic selection in biparental populations of flax (Linum usitatissimum L.). Crop J 4, 290-303.
  • You, F.M., G. Jia, S. Cloutier, H.M. Booker, S.D. Duguid, and K.Y. Rashid, 2016c: A method of estimating broad-sense heritability for quantitative traits in the type 2 modified augmented design. J. Plant Breed. Crop Sci 8, 257-272.
  • You, F.M., Q. Song, G. Jia, Y. Cheng, S. Duguid, H. Booker, and S. Cloutier, 2016d: Estimation of genetic parameters and their sampling variances for quantitative traits in the type 2 modified augmented design. Crop J 4, 107-118.
  • Cheung, K.-Y., K.-H. Lee, K.-S. Leung, Y. Lai, Q. Li, L. Li, Y. Yang, X. Dai, F.M. You, and S. Cloutier, 2015: Analysis of human miRNAs, gene targets and diseases network. Int J Biosci Biochem 5, 140.
  • Chingcuanco, D.L., S. Ganeshan, F. You, B. Fowler, R. Chibbar, P. McGuire, and O.D. Anderson, 2015: Transcriptome profiling and expression analyses of genes critical to wheat adaptation to low temperature. BMC Plant Biol 15, 152.
  • Hiebert, C., W. Spielmeyer, C. McCartney, M. Kassa, T. Fetch, F. You, J. Menzies, G. Humphreys, and B. McCallum, 2015: Stem Rust Resistance: Two Approaches Advances in Wheat Genetics: From Genome to Field, 183-191. Springer, Tokyo.
  • Kumar, S., F.M. You, S. Duguid, H. Booker, G. Rowland, and S. Cloutier, 2015: QTL for fatty acid composition and yield in linseed (Linum usitatissimum L.). Theor Appl Genet 128, 965-84.
  • Luo, M.C., F.M. You, P. Li, J.R. Wang, T. Zhu, A.M. Dandekar, C.A. Leslie, M. Aradhya, P.E. McGuire, and J. Dvorak, 2015: Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials. BMC Genomics 16, 707.
  • Muñoz‐Amatriaín, M., S. Lonardi, M. Luo, K. Madishetty, J.T. Svensson, M.J. Moscou, S. Wanamaker, T. Jiang, A. Kleinhofs, and G.J. Muehlbauer, 2015: Sequencing of 15 622 gene-bearing BAC s clarifies the gene-dense regions of the barley genome. Plant J 84, 216-227.
  • Sekhwal, M.K., P. Li, I. Lam, X. Wang, S. Cloutier, and F.M. You, 2015: Disease resistance gene nalogs (RGAs) in plants. Int J Mol Sci 16, 19248-90.
  • You, F.M., S. Cloutier, Y. Shan, and R. Ragupathy, 2015: LTR Annotator: automated identification and annotation of LTR retrotransposons in plant genomes. Int J Biosci Biochem 5, 165-174.
  • Zhang, L., M. Luo, F.M. You, E. Nevo, S. Lu, D. Sun, and J. Peng, 2015: Development of microsatellite markers in tung tree (Vernicia fordii) using cassava genomic sequences. Plant Mol Biol Rep 33, 893-904.
  • Cabral, A.L., M.C. Jordan, C.A. McCartney, F.M. You, D.G. Humphreys, R. MacLachlan, and C.J. Pozniak, 2014: Identification of candidate genes, regions and markers for pre-harvest sprouting resistance in wheat (Triticum aestivum L.). BMC Plant Biol 14, 340.
  • Deng, P., X. Nie, L. Wang, L. Cui, P. Liu, W. Tong, S.S. Biradar, D. Edwards, P. Berkman, H. Šimková, J. Doležel, M. Luo, F. You, J. Batley, D. Fleury, R. Appels, and S. Weining, 2014: Computational identification and comparative analysis of miRNAs in wheat group 7 chromosomes. Plant Mol Biol Rep 32, 487-500.
  • Nie, X., P. Deng, K. Feng, P. Liu, X. Du, F.M. You, and S. Weining, 2014: Comparative analysis of codon usage patterns in chloroplast genomes of the Asteraceae family. Plant Mol Biol Rep 32, 828-840.
  • Varshney, R.K., R.R. Mir, S. Bhatia, M. Thudi, Y. Hu, S. Azam, Y. Zhang, D. Jaganathan, F.M. You, J. Gao, O. Riera-Lizarazu, and M.C. Luo, 2014: Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.). Funct Integr Genomics 14, 59-73.
  • Wang, W., B. Feng, J. Xiao, Z. Xia, X. Zhou, P. Li, W. Zhang, Y. Wang, B.L. Moller, P. Zhang, M.C. Luo, G. Xiao, J. Liu, J. Yang, S. Chen, P.D. Rabinowicz, X. Chen, H.B. Zhang, H. Ceballos, Q. Lou, M. Zou, L.J. Carvalho, C. Zeng, J. Xia, S. Sun, Y. Fu, H. Wang, C. Lu, M. Ruan, S. Zhou, Z. Wu, H. Liu, R.M. Kannangara, K. Jorgensen, R.L. Neale, M. Bonde, N. Heinz, W. Zhu, S. Wang, Y. Zhang, K. Pan, M. Wen, P.A. Ma, Z. Li, M. Hu, W. Liao, W. Hu, S. Zhang, J. Pei, A. Guo, J. Guo, J. Zhang, Z. Zhang, J. Ye, W. Ou, Y. Ma, X. Liu, L.J. Tallon, K. Galens, S. Ott, J. Huang, J. Xue, F. An, Q. Yao, X. Lu, M. Fregene, L.A. Lopez-Lavalle, J. Wu, F.M. You, M. Chen, S. Hu, G. Wu, S. Zhong, P. Ling, Y. Chen, Q. Wang, G. Liu, B. Liu, K. Li, and M. Peng, 2014: Cassava genome from a wild ancestor to cultivated varieties. Nat Commun 5, 5110.
  • You, F.M., P. Li, S. Kumar, R. Ragupathy, Z. Li, Y.-B. Fu, and S. Cloutier, 2014: Genome-wide Identification and characterization of the gene families controlling fatty acid biosynthesis in flax (Linum usitatissimum L). J Proteomics Bioinform 7, 310-326.
  • Gottlieb, A., H.G. Muller, A.N. Massa, H. Wanjugi, K.R. Deal, F.M. You, X. Xu, Y.Q. Gu, M.C. Luo, O.D. Anderson, A.P. Chan, P. Rabinowicz, K.M. Devos, and J. Dvorak, 2013: Insular organization of gene space in grass genomes. PLoS One 8, e54101.
  • Luo, M.C., Y.Q. Gu, F.M. You, K.R. Deal, Y. Ma, Y. Hu, N. Huo, Y. Wang, J. Wang, S. Chen, C.M. Jorgensen, Y. Zhang, P.E. McGuire, S. Pasternak, J.C. Stein, D. Ware, M. Kramer, W.R. McCombie, S.F. Kianian, M.M. Martis, K.F. Mayer, S.K. Sehgal, W. Li, B.S. Gill, M.W. Bevan, H. Simkova, J. Dolezel, S. Weining, G.R. Lazo, O.D. Anderson, and J. Dvorak, 2013: A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor. Proc Natl Acad Sci U S A 110, 7940-5.
  • Ragupathy, R., F.M. You, and S. Cloutier, 2013: Arguments for standardizing transposable element annotation in plant genomes. Trends Plant Sci 18, 367-76.
  • Ren, J., L. Chen, D. Sun, F.M. You, J. Wang, Y. Peng, E. Nevo, A. Beiles, M.C. Luo, and J. Peng, 2013a: SNP-revealed genetic diversity in wild emmer wheat correlates with ecological factors. BMC Evol Biol 13, 169.
  • Ren, J., D. Sun, L. Chen, F.M. You, J. Wang, Y. Peng, E. Nevo, M.C. Luo, and J. Peng, 2013b: Genetic diversity revealed by single nucleotide polymorphism markers in a worldwide germplasm collection of durum wheat. Int J Mol Sci 14, 7061-88.
  • Thambugala, D., S. Duguid, E. Loewen, G. Rowland, H. Booker, F.M. You, and S. Cloutier, 2013: Genetic variation of six desaturase genes in flax and their impact on fatty acid composition. Theor Appl Genet 126, 2627-41.
  • Wang, J., M.C. Luo, Z. Chen, F.M. You, Y. Wei, Y. Zheng, and J. Dvorak, 2013: Aegilops tauschii single nucleotide polymorphisms shed light on the origins of wheat D-genome genetic diversity and pinpoint the geographic origin of hexaploid wheat. New Phytol 198, 925-37.
  • You, F.M., S.D. Duguid, D. Thambugala, and S. Cloutier, 2013: Statistical analysis and field evaluation of the type 2 modified augmented design (MAD) in phenotyping of flax (Linum usitatissimum) germplasms in multiple environments. Austr J Crop Sci 7, 1789.
  • Dvorak, J., K.R. Deal, M.C. Luo, F.M. You, K. von Borstel, and H. Dehghani, 2012: The origin of spelt and free-threshing hexaploid wheat. J Hered 103, 426-41.
  • Kumar, S., F.M. You, and S. Cloutier, 2012: Genome wide SNP discovery in flax through next generation sequencing of reduced representation libraries. BMC Genomics 13, 684.
  • Wang, Y., F.M. You, G.R. Lazo, M.C. Luo, R. Thilmony, S. Gordon, S.F. Kianian, and Y.Q. Gu, 2012: PIECE: a database for plant gene structure comparison and evolution. Nucleic Acids Res 41, D1159-66.
  • You, F.M., K.R. Deal, J. Wang, M.T. Britton, J.N. Fass, D. Lin, A.M. Dandekar, C.A. Leslie, M. Aradhya, M.C. Luo, and J. Dvorak, 2012: Genome-wide SNP discovery in walnut with an AGSNP pipeline updated for SNP discovery in allogamous organisms. BMC Genomics 13, 354.
  • Huo, N., D.F. Garvin, F.M. You, S. McMahon, M.C. Luo, Y.Q. Gu, G.R. Lazo, and J.P. Vogel, 2011: Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon. Theor Appl Genet 123, 455-64.
  • Laudencia-Chingcuanco, D., S. Ganeshan, F. You, B. Fowler, R. Chibbar, and O. Anderson, 2011: Genome-wide gene expression analysis supports a developmental model of low temperature tolerance gene regulation in wheat (Triticum aestivum L.). BMC Genomics 12, 299.
  • Massa, A.N., H. Wanjugi, K.R. Deal, K. O'Brien, F.M. You, R. Maiti, A.P. Chan, Y.Q. Gu, M.C. Luo, O.D. Anderson, P.D. Rabinowicz, J. Dvorak, and K.M. Devos, 2011: Gene space dynamics during the evolution of Aegilops tauschii, Brachypodium distachyon, Oryza sativa, and Sorghum bicolor genomes. Mol Biol Evol 28, 2537-47.
  • Palti, Y., C. Genet, G. Gao, Y. Hu, F.M. You, M. Boussaha, C.E. Rexroad, 3rd, and M.C. Luo, 2011: A second generation integrated map of the rainbow trout (Oncorhynchus mykiss) genome: analysis of conserved synteny with model fish genomes. Mar Biotechnol (NY) 14, 343-57.
  • Qin, B., A. Cao, H. Wang, T. Chen, F.M. You, Y. Liu, J. Ji, D. Liu, P. Chen, and X.E. Wang, 2011: Collinearity-based marker mining for the fine mapping of Pm6, a powdery mildew resistance gene in wheat. Theor Appl Genet 123, 207-18.
  • Simkova, H., J. Safar, M. Kubalakova, P. Suchankova, J. Cihalikova, H. Robert-Quatre, P. Azhaguvel, Y. Weng, J. Peng, N.L. Lapitan, Y. Ma, F.M. You, M.C. Luo, J. Bartos, and J. Dolezel, 2011: BAC libraries from wheat chromosome 7D: efficient tool for positional cloning of aphid resistance genes. J Biomed Biotechnol 2011, 302543.
  • Wu, J., Y.Q. Gu, Y. Hu, F.M. You, A.M. Dandekar, C.A. Leslie, M. Aradhya, J. Dvorak, and M.C. Luo, 2011: Characterizing the walnut genome through analyses of BAC end sequences. Plant Mol Biol 78, 95-107.
  • You, F.M., N. Huo, K.R. Deal, Y.Q. Gu, M.C. Luo, P.E. McGuire, J. Dvorak, and O.D. Anderson, 2011: Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence. BMC Genomics 12, 59.
  • Zhao, H., J. Yu, F.M. You, M. Luo, and J. Peng, 2011: Transferability of microsatellite markers from Brachypodium distachyon to Miscanthus sinensis, a potential biomass crop. J Integr Plant Biol 53, 232-45.
  • Zhu, X., H. Wang, J. Guo, Z. Wu, A. Cao, T. Bie, M. Nie, F.M. You, Z. Cheng, J. Xiao, Y. Liu, S. Cheng, P. Chen, and X. Wang, 2011: Mapping and validation of quantitative trait loci associated with wheat yellow mosaic bymovirus resistance in bread wheat. Theor Appl Genet 124, 177-88.
  • Akhunov, E.D., A.R. Akhunova, O.D. Anderson, J.A. Anderson, N. Blake, M.T. Clegg, D. Coleman-Derr, E.J. Conley, C.C. Crossman, K.R. Deal, J. Dubcovsky, B.S. Gill, Y.Q. Gu, J. Hadam, H. Heo, N. Huo, G.R. Lazo, M.C. Luo, Y.Q. Ma, D.E. Matthews, P.E. McGuire, P.L. Morrell, C.O. Qualset, J. Renfro, D. Tabanao, L.E. Talbert, C. Tian, D.M. Toleno, M.L. Warburton, F.M. You, W. Zhang, and J. Dvorak, 2010: Nucleotide diversity maps reveal variation in diversity among wheat genomes and chromosomes. BMC Genomics 11, 702.
  • Fleury, D., M.C. Luo, J. Dvorak, L. Ramsay, B.S. Gill, O.D. Anderson, F.M. You, Z. Shoaei, K.R. Deal, and P. Langridge, 2010: Physical mapping of a large plant genome using global high-information-content-fingerprinting: the distal region of the wheat ancestor Aegilops tauschii chromosome 3DS. BMC Genomics 11, 382.
  • International Brachypodium, I., 2010: Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463, 763.
  • Luo, M.C., Y. Ma, F.M. You, O.D. Anderson, D. Kopecky, H. Simkova, J. Safar, J. Dolezel, B. Gill, P.E. McGuire, and J. Dvorak, 2010: Feasibility of physical map construction from fingerprinted bacterial artificial chromosome libraries of polyploid plant species. BMC Genomics 11, 122.
  • You, F.M., M.C. Luo, K. Xu, K.R. Deal, O.D. Anderson, and J. Dvorak, 2010a: A new implementation of high-throughput five-dimensional clone pooling strategy for BAC library screening. BMC Genomics 11, 692.
  • You, F.M., H. Wanjugi, N. Huo, G.R. Lazo, M.-C. Luo, O.D. Anderson, J. Dvorak, and Y.Q. Gu, 2010b: RJPrimers: unique transposable element insertion junction discovery and PCR primer design for marker development. Nucleic Acids Res 38, W313-W320.
  • You, F.M., H. Wanjugi, N. Huo, G.R. Lazo, M.C. Luo, O.D. Anderson, J. Dvorak, and Y.Q. Gu, 2010c: RJPrimers: unique transposable element insertion junction discovery and PCR primer design for marker development. Nucleic Acids Res 38, W313-20.
  • Gu, Y.Q., Y. Ma, N. Huo, J.P. Vogel, F.M. You, G.R. Lazo, W.M. Nelson, C. Soderlund, J. Dvorak, O.D. Anderson, and M.C. Luo, 2009: A BAC-based physical map of Brachypodium distachyon and its comparative analysis with rice and wheat. BMC Genomics 10, 496.
  • Huo, N., J.P. Vogel, G.R. Lazo, F.M. You, Y. Ma, S. McMahon, J. Dvorak, O.D. Anderson, M.C. Luo, and Y.Q. Gu, 2009: Structural characterization of Brachypodium genome and its syntenic relationship with rice and wheat. Plant Mol Biol 70, 47-61.
  • Lazo, G.R., N.Y. Lui, and F.M. You, 2009: Computer display tool for visualizing relationships between and among data. US Patent 7,475,087.
  • Luo, M.C., K.R. Deal, E.D. Akhunov, A.R. Akhunova, O.D. Anderson, J.A. Anderson, N. Blake, M.T. Clegg, D. Coleman-Derr, E.J. Conley, C.C. Crossman, J. Dubcovsky, B.S. Gill, Y.Q. Gu, J. Hadam, H.Y. Heo, N. Huo, G. Lazo, Y. Ma, D.E. Matthews, P.E. McGuire, P.L. Morrell, C.O. Qualset, J. Renfro, D. Tabanao, L.E. Talbert, C. Tian, D.M. Toleno, M.L. Warburton, F.M. You, W. Zhang, and J. Dvorak, 2009: Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae. Proc Natl Acad Sci U S A 106, 15780-5.
  • Palti, Y., M.C. Luo, Y. Hu, C. Genet, F.M. You, R.L. Vallejo, G.H. Thorgaard, P.A. Wheeler, and C.E. Rexroad, 3rd, 2009: A first generation BAC-based physical map of the rainbow trout genome. BMC Genomics 10, 462.
  • You, F.M., N. Huo, Y.Q. Gu, G.R. Lazo, J. Dvorak, and O.D. Anderson, 2009: ConservedPrimers 2.0: a high-throughput pipeline for comparative genome referenced intron-flanking PCR primer design and its application in wheat SNP discovery. BMC Bioinformatics 10, 331.
  • Dvorak, J., M.-C. Luo, M. Aradhya, D. Velasco, C.A. Leslie, S.L. Uratsu, M.T. Britton, R.L. Reagan, J. Wu, and Y.Q. Gu, 2008: Walnut genome analysis. Walnut Research Reports Database.
  • Huo, N., G.R. Lazo, J.P. Vogel, F.M. You, Y. Ma, D.M. Hayden, D. Coleman-Derr, T.A. Hill, J. Dvorak, O.D. Anderson, M.C. Luo, and Y.Q. Gu, 2008: The nuclear genome of Brachypodium distachyon: analysis of BAC end sequences. Funct Integr Genomics 8, 135-47.
  • You, F.M., N. Huo, Y.Q. Gu, M.C. Luo, Y. Ma, D. Hane, G.R. Lazo, J. Dvorak, and O.D. Anderson, 2008: BatchPrimer3: a high throughput web application for PCR and sequencing primer design. BMC Bioinformatics 9, 253.
  • Laudencia-Chingcuanco, D.L., B.S. Stamova, F.M. You, G.R. Lazo, D.M. Beckles, and O.D. Anderson, 2007: Transcriptional profiling of wheat caryopsis development using cDNA microarrays. Plant Mol Biol 63, 651-68.
  • Luo, M.C., Z.L. Yang, F.M. You, T. Kawahara, J.G. Waines, and J. Dvorak, 2007: The structure of wild and domesticated emmer wheat populations, gene flow between them, and the site of emmer domestication. Theor Appl Genet 114, 947-59.
  • You, F.M., M.C. Luo, Y.Q. Gu, G.R. Lazo, K. Deal, J. Dvorak, and O.D. Anderson, 2007: GenoProfiler: batch processing of high-throughput capillary fingerprinting data. Bioinformatics 23, 240-2.
  • Chao, S., G.R. Lazo, F. You, C.C. Crossman, D.D. Hummel, N. Lui, D. Laudencia-Chingcuanco, J.A. Anderson, T.J. Close, and J. Dubcovsky, 2006: Use of a large-scale Triticeae expressed sequence tag resource to reveal gene expression profiles in hexaploid wheat (Triticum aestivum L.). Genome 49, 531-544.
  • Kuang, H., F. Wei, M.R. Marano, U. Wirtz, X. Wang, J. Liu, W.P. Shum, J. Zaborsky, L.J. Tallon, and W. Rensink, 2005: The R1 resistance gene cluster contains three groups of independently evolving, type I R1 homologues and shows substantial structural variation among haplotypes of Solanum demissum. Plant J 44, 37-51.
  • Lazo, G.R., N. Lui, F.M. You, D.D. Hummel, S. Chao, and O.D. Anderson, 2005: Charting Contig-Component Relationships within the Triticeae Genome Exploitation, 109-120. Springer, Boston, MA.
  • Dvorak, J., Z.L. Yang, F.M. You, and M.C. Luo, 2004: Deletion polymorphism in wheat chromosome regions with contrasting recombination rates. Genetics 168, 1665-75.
  • Gu, Y.Q., C. Crossman, X. Kong, M. Luo, F.M. You, D. Coleman-Derr, J. Dubcovsky, and O.D. Anderson, 2004: Genomic organization of the complex alpha-gliadin gene loci in wheat. Theor Appl Genet 109, 648-57.
  • Kong, X.Y., Y.Q. Gu, F.M. You, J. Dubcovsky, and O.D. Anderson, 2004: Dynamics of the evolution of orthologous and paralogous portions of a complex locus region in two genomes of allopolyploid wheat. Plant Mol Biol 54, 55-69.
  • Lazo, G.R., S. Chao, D.D. Hummel, H. Edwards, C.C. Crossman, N. Lui, D.E. Matthews, V.L. Carollo, D.L. Hane, and F.M. You, 2004a: WHEAT INVESTIGATIONS-Development of an expressed sequence tag (EST) resource for wheat (Triticum aestivum L.): EST generation, unigene analysis, probe selection and bioinformatics for a. Genetics 168, 585-594.
  • Lazo, G.R., S. Chao, D.D. Hummel, H. Edwards, C.C. Crossman, N. Lui, D.E. Matthews, V.L. Carollo, D.L. Hane, F.M. You, G.E. Butler, R.E. Miller, T.J. Close, J.H. Peng, N.L. Lapitan, J.P. Gustafson, L.L. Qi, B. Echalier, B.S. Gill, M. Dilbirligi, H.S. Randhawa, K.S. Gill, R.A. Greene, M.E. Sorrells, E.D. Akhunov, J. Dvorak, A.M. Linkiewicz, J. Dubcovsky, K.G. Hossain, V. Kalavacharla, S.F. Kianian, A.A. Mahmoud, Miftahudin, X.F. Ma, E.J. Conley, J.A. Anderson, M.S. Pathan, H.T. Nguyen, P.E. McGuire, C.O. Qualset, and O.D. Anderson, 2004b: Development of an expressed sequence tag (EST) resource for wheat (Triticum aestivum L.): EST generation, unigene analysis, probe selection and bioinformatics for a 16,000-locus bin-delineated map. Genetics 168, 585-93.
  • Luo, M.C., C. Thomas, F.M. You, J. Hsiao, S. Ouyang, C.R. Buell, M. Malandro, P.E. McGuire, O.D. Anderson, and J. Dvorak, 2003: High-throughput fingerprinting of bacterial artificial chromosomes using the snapshot labeling kit and sizing of restriction fragments by capillary electrophoresis. Genomics 82, 378-89.

Affiliations

Professeur invité, Université agricole de Nanjing

Professeur auxiliaire, Université du Manitoba

Langue

Anglais

Autres langues

Mandarin/Chinese