Simon Joly

Professeur associé,
Université de Montréal

Institut de recherche en biologie végétale
Bureau C-317
4101 Sherbrooke Est
Montréal, QC H1X 2B2
Canada
Tél: 514.872.0344
Courriel: simon.joly@umontreal.ca
Page web de l'institution
Page personnelle



Éducation
  • Ph.D. Université de Montréal, 2006
  • B. Sc. Université de Montréal, 2000


  • Recherche
    Le laboratoire de Simon Joly cherche à comprendre la biodiversité du vivant en étudiant l'évolution des plantes. Nos recherches combinent des études de terrain, de la biologie moleculaire, ainsi que des approches analytiques et théoriques. Ils utilisent des outils de phylogénétique, de génétique des populations, de génétique quantitative et de bioinformatique afin de comprendre les processus évolutifs des plantes. Les principaux sujets étudiés dans le laboratoire sont l'évolution des systèmes de reproduction, l'hybridation, la spéciation et la génétique des plantes.

    Prix et honneurs
  • Médaille d'or du Gouverneur Général du Canada (2006)
  • Prix E.A. Porsild (2006)
  • Prix Lionnel Cinq-Mars (2002)


  • Étudiants CSBQ
    Yanitch Aymeric, Ph.D.
    (Début: 2011, Fin: 2017)

    Autre (co-)superviseur: Michel Labrecque, Université de Montréal
    Titre du projet: Transcriptomique des espèces végétales utilisées en phytorémédiation de l'arsenic
    Page personnelle
    Gonzalo Bilbao Gómez-Martino, Ph.D.
    (Début: 2015, Fin: 2020)

    Autre (co-)superviseur membre du CSBQ: Anne Bruneau
    Titre du projet: L´évolution des systèmes de pollinisation chez le genre Erythrina (Fabaceae)
    Julie Faure, Ph.D.
    (Début: 2016, Fin: 2019)

    Titre du projet: Etude des relations plantes-pollinisateurs et de l'évolution de la pollinisation des Gesneriaceae antillaises
    Marie Florence Sandrine Ngo Ngwe, Ph.D.
    (Début: 2011, Fin: 2017)

    Autre (co-)superviseur: OMOKOLO NDOUMOU, Denis
    Titre du projet: Diversité génétique des espèces d'igname (Dioscorea spp.) au Cameroun et recherche de leur aptitude å la microtubérisation
    Anciens étudiants (depuis 2009)
    Hermine Alexandre, Ph.D.
    (Début: 2012, Fin: 2016)
    Titre du projet: Évolution des systèmes de reproduction chez les plantes antillaises Gesneria et Rhytidophyllum
    François Lambert, M.Sc.
    (Début: 2013, Fin: 2015)

    Titre du projet: Délimitation d'espèces chez les plantes du complexe du Gesneria viridiflora dans les Antilles
    Publications
    39- Comparative transcriptomic approaches exploring contamination stress tolerance in Salix sp. Reveal the importance for a metaorganismal de novo assembly approach for nonmodel plants
    Brereton N.J.B., Gonzalez E., Marleau J., Nissim W.G., Labrecque M., Joly S., Pitre F.E.
    2016 Plant Physiology (Date Added: 2017-02-15)

    38- Explaining naturalization and invasiveness: new insights from historical ornamental plant catalogs
    Lavoie, C., Joly, S., Bergeron, A., Guay, G., Groeneveld, E.
    2016 Ecology and Evolution (Date Added: 2016-11-29)

    37- Symbiotic association between Salix purpurea L. and Rhizophagus irregularis: modulation of plant responses under copper stress
    Almeida-Rodriguez, A.M., Gomes, M.P., Loubert-Hudon, A., Joly, S., Labrecque, M.
    2016 Tree Physiology (Date Added: 2016-07-06)

    36-Comparative transcriptomic approaches exploring contamination stress tolerance in Salix sp. reveal the importance for a metaorganismal de novo assembly approach for non-model plants
    Brereton, N.J.B., E. Gonzalez, J. Marleau, W. Guidi, M. Labrecque, S. Joly, F.E. Pitre.
    2016 Plant Physiology ( Date Added: 2016-06-15)

    33- Nuclear DNA content of four cultivated species of yams (Dioscorea spp.) from Cameroon.
    Ngo Ngwe, M.F.S., Joly, S., Bourge, M., Brown, S., Omokolo, D.N.
    2015 Journal of Plant Breeding and Genetics (Date Added: 2016-06-15)

    32- Evolution and Phylogenetic Diversity of Yam Species (Dioscorea spp.): Implication for Conservation and Agricultural Practices
    Ngo Ngwe, M.F.S., Omokolo, D.N., Joly, S.
    2015 PloS one (Date Added: 2016-02-26)

    31- Meta-transcriptomics indicates biotic cross-tolerance in willow trees cultivated on petroleum hydrocarbon contaminated soil
    Gonzalez, E., Brereton, N.J.B., Marleau, J., Guidi Nissim, W., Labrecque, M., Pitre, F.E., Joly, S.
    2015 BMC Plant Biology (Date Added: 2015-11-16)

    30- Flexible methods for estimating genetic distances from single nucleotide polymorphisms
    Joly, S., Bryant, D., Lockhart, P.J., Bunce, M.
    2015 Methods in Ecology and Evolution (Date Added: 2015-08-26)

    29- Phylogeny and biogeography of wild roses with specific attention to polyploids
    Fougere-Danezan, M., Joly, S., Bruneau, A., Gao, X.-F., Zhang, L.-B.
    2015 Annals of Botany (Date Added: 2015-02-27)

    28- Increasing phytoremediation efficiency and reliability using novel omics approaches
    Bell, T.H., Joly, S., Pitre, F.E., Yergeau, E.
    2014 Trends in Biotechnology (Date Added: 2014-04-29)

    27- Testing Hybridization Hypotheses with Morphometry: the Case of Eastern American Arctic Species of <I>Potentilla</I> sect. <I>Niveae</I> (Rosaceae)
    Léveillé-Bourret, Étienne, Bailleul, Stéphane M., Cayouette, Jacques, Joly, Simon
    2014 Systematic Botany (Date Added: 2014-03-11)

    26- Ecology in the age of DNA barcoding: the resource, the promise and the challenges ahead
    Joly, Simon, Davies, T. Jonathan, Archambault, Annie, Bruneau, Anne, Derry, Alison, Kembel, Steven W., Peres-Neto, Pedro, Vamosi, Jana, Wheeler, Terry A.
    2014 Molecular Ecology Resources (Date Added: 2014-03-04)

    25-Des codes à barre pour toutes les espèces vasculaires québécoises!
    Léveillé-Bourret, É., S. Joly.
    2013 Flora Québéca ( Date Added: 2016-06-15)

    24- Species Radiation by Niche Shifts in New Zealand's Rockcresses (Pachycladon, Brassicaceae)
    Joly, Simon, Heenan, Peter B., Lockhart, Peter J.
    2013 Systematic Biology (Date Added: 2013-12-19)

    23- Impact of RNA-seq attributes on false positive rates in differential expression analysis of de novo assembled transcriptomes
    González, Emmanuel, Joly, Simon
    2013 BMC Research Notes (Date Added: 2013-12-12)

    22- Structuration of the genetic and metabolite diversity among Prince Edward Island cultivated wild rose ecotypes
    Ghose, Kaushik, McCallum, Jason, Fillmore, Sherry, Kirby, Chris, Sanderson, Kevin, Joly, Simon, Bruneau, Anne, Fofana, Bourlaye
    2013 Scientia Horticulturae (Date Added: 2013-07-29)

    21- Demographic Signatures Accompanying the Evolution of Selfing in Leavenworthia Alabamica
    Busch, Jeremiah W, Joly, Simon, Schoen, Daniel J
    2011 Molecular Biology and Evolution (Date Added: 2012-04-26)

    19- JML: testing hybridization from species trees
    Joly, Simon
    2011 Molecular Ecology Resources (Date Added: 2011-09-25)

    18-Pachycladon
    Joly, S.
    2011 Wild crop relatives : genomic and breeding resources : cereals ( Date Added: 2011-08-26)

    17- Fast diploidization in close mesopolyploid relatives of Arabidopsis
    Mandáková, T., Joly, S., Krzywinski, M., Mummenhoff, K., Lysaka, M.A.
    2010 Plant Cell (Date Added: 2011-04-15)

    16- Erratum: A statistical approach for distinguishing hybridization and incomplete lineage sorting (American Naturalist 174 (E54-E70))
    Joly, S., Pfeil, B.E., Oxelman, B., McLenachan, P.A., Lockhart, P.J.
    2010 American Naturalist (Date Added: 2011-04-15)

    14- A statistical approach for distinguishing hybridization and incomplete lineage sorting
    Joly, S., McLenachan, P.A., Lockhart, P.J.
    2009 American Naturalist (Date Added: 2011-04-15)

    13- A Pleistocene inter-tribal allopolyploidization event precedes the species radiation of Pachycladon (Brassicaceae) in New Zealand
    Joly, S., Heenan, P.B., Lockhart, P.J.
    2009 Molecular Phylogenetics and Evolution (Date Added: 2011-04-15)

    12- Measuring branch support in species trees obtained by gene tree parsimony
    Joly, S., Bruneau, A.
    2009 Systematic Biology (Date Added: 2011-04-15)

    11- An approach to transcriptome analysis of non-model organisms using short-read sequences
    Collins, L.J., Biggs, P.J., Voelckel, C., Joly, S.
    2008 Genome informatics. International Conference on Genome Informatics (Date Added: 2011-04-15)

    10- Phylogeny of dinoflagellate plastid genes recently transferred to the nucleus supports a common ancestry with red algal plastid genes
    Wang, Y., Joly, S., Morse, D.
    2008 Journal of Molecular Evolution (Date Added: 2011-04-15)

    9- Phylogenetic relationships in the genus Rosa: New evidence from chloroplast DNA sequences and an appraisal of current knowledge
    Bruneau, A., Starr, J.R., Joly, S.
    2007 Systematic Botany (Date Added: 2011-04-15)

    8- Delimiting species boundaries in Rosa sect. Cinnamomeae (Rosaceae) in eastern North America
    Joly, S., Bruneau, A.
    2007 Systematic Botany (Date Added: 2011-04-15)

    7- Haplotype networks can be misleading in the presence of missing data.
    Joly, S., Stevens, M.I., van Vuuren, B.J.
    2007 Systematic biology (Date Added: 2011-04-15)

    6- Polyploid and hybrid evolution in roses east of the Rocky Mountains
    Joly, S., Starr, J.R., Lewis, W.H., Bruneau, A.
    2006 American Journal of Botany (Date Added: 2011-04-15)

    4- Molecular markers indicate that the narrow Québec endemics Rosa rousseauiorum and Rosa williamsii are synonymous with the widespread Rosa blanda
    Bruneau, A., Joly, S., Starr, J.R., Drouin, J.-N.
    2005 Canadian Journal of Botany (Date Added: 2011-04-15)

    2- Evolutionary dynamics and preferential expression of homeologous 18S-5.8S-26S nuclear ribosomal genes in natural and artificial glycine allopolyploids
    Joly, S., Rauscher, J.T., Sherman-Broyles, S.L., Brown, A.H.D., Doyle, J.J.
    2004 Molecular Biology and Evolution (Date Added: 2011-04-15)

    1- Phylogenetic implications of the multiple losses of the mitochondrial coxll.i3 intron in the angiosperms
    Joly, S., Brouillet, L., Bruneau, A.
    2001 International Journal of Plant Sciences (Date Added: 2011-04-15)

    Dans les média
    Champignons et bactéries aident les plantes
    UdeMNouvelles (Sauvé, Mathieu-Robert) 2014-04-24

    Reproduction végétale valorisée
    Les années lumière 2012-03-25

    What part of a scented flower gives off the smell?
    Quirks & Quarks (McDonald, Bob) 2011-05-28