PD Dr. Célia Baroux
phone: +41 (0)44 63 48250
fax: +41 (0)44 63 48204 Research InterestsKeywords Education Previous Positions and Research Experience Fellowships and Awards List of Publications |  |
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My aim is to understand the relationship between nuclear organization and genome expression in plant developmental phase transitions. My research focus on describing the dynamics and functional relevance of nuclear re-organization events during cell fate establishment, particularly in the reproductive phase in Arabidopsis. In the past years, our group has developed expertise in quantitative, high-resolution imaging of chromatin components and modifications in single cells, in whole-mount Arabidopsis reproductive structures. In combination with genetic perturbations and expression analyses, this approach will allow establishing a causative link between nuclear organization dynamics and cellular plasticity in plants.
Arabidopsis, nuclear organization, chromatin, epigenetics, reproduction, development
| 2017 | Habilitation (Venia Legendi) Faculty of Life sciences, University of Zurich |
| 1997 - 2000 | Graduate studies in Developmental Biology University of Perpignan, Laboratoire de Génome et Développement des Plantes (Dr. Delseny), France PhD thesis under the supervision of Prof. Dr. Patrick Gallois: "Use of the pOp/LhG4 transactivation system: towards gene misexpression in the Arabidopsis embyro" |
| 1996 - 1997 | Diploma thesis under the supervision of Prof. Dr. Ian Moore University of Oxford, UK "Novel steroid-inducible transcription factors for controlling gene expression in plants" |
| 1994 - 1997 | Undergraduate studies (Magistère / MSc) in Molecular and Cellular Biology Ecole Normale Supérieure de Lyon & University of Lyon I, France |
| 2008 - pres | Group leader & Lecturer Assistant (Oberassistent) Department of Plant Developmental Genetics (Prof. Grossniklaus) Institute of Plant and Microbial Biology, University of Zurich, Switzerland |
| 2000 - 2008 | Postdoctoral researcher in Prof. Dr. Ueli Grossniklaus laboratory Institute of Plant and Microbial Biology, University of Zurich, Switzerland |
| 1998 - 2000 | Teaching Assistant of Prof. Dr. Manuel Echeverria University of Perpignan, France |
| 2017 - 2019 | Joined funding Velux Stiftung, Ricola Stiftung - Project grant to investigate fine-scale chromatin reorganisation of the plant chromatin under light responses, project in collaboration with Dr Fredy Barneche, IBENS Paris (France) |
| 2016 - 2018 | Swiss National Science Foundation (SNF)/ Agence Nationale de la Recherche - Joint project grant (310030L_170167 / 1) |
| 2016 - 2018 | PSC-Syngenta PhD project grant (shared with Dr A.Roulin) |
| 2016 - 2018 | IMAGO Project |
| 2014 | Baugarten Stiftung subsidie |
| 2014 - 2016 | Swiss Commission for Technology and Innovation (CTI project (16997) |
| 2014 - 2018 | SystemsX.ch iPhD project (2014/235) |
| 2014 - 2017 | Swiss National Science Foundation (SNF) project grant (31/149974) |
| 2010 - 2013 | Swiss National Science Foundation Project (31/130722) |
| 2007 - 2008 | Marie-Heim Vötglin Post-Doctoral Fellowship (SNF) |
| 2005 - 2006 | Forshungskredit Post-Doctoral Fellowship |
| 2003 - 2004 | Roche Research Foundation Post-Doctoral Fellowship |
| 1998 - 2000 | Doctoral Research & Teaching Fellowship (French Minister of Education, AMR) |
Nowicka A, Ferková L, Said M, Kovacik M, Zwyrtková J, Baroux C, Pecinka A. (2023) Non-Rabl chromosome organization in endoreduplicated nuclei of barley embryo and endosperm tissues. J Exp Bot. In Press. DOI: 10.1093/jxb/erad036
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Randall RS, Jourdain C, Nowicka A, Kaduchová K, Kubová M, Ayoub MA, Schubert V, Tatout C, Colas I, Kalyanikrishna, Desset S, Mermet S, Boulaflous-Stevens A, Kubalová I, Mandáková T, Heckmann S, Lysak MA, Panatta M, Santoro R, Schubert D, Pecinka A, Routh D, Baroux C. (2022) Image analysis workflows to reveal the spatial organization of cell nuclei and chromosomes. Nucleus 13(1):277-299. doi: 10.1080/19491034.2022.2144013.
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Schubert J, Li Y, Mendes MA, Fei D, Dickinson H, Moore I, Baroux C. (2022) A procedure for Dex-induced gene transactivation in Arabidopsis ovules. Plant Methods. 18(1):41. doi: 10.1186/s13007-022-00879-x.
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Tatout C, Mougeot G, Parry G, Baroux C, Pradillo M, Evans D. (2022) The INDEPTH (Impact of Nuclear Domains on Gene Expression and Plant Traits) Academy: a community resource for plant science. J Exp Bot 73(7):1926-1933. doi: 10.1093/jxb/erac005.
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Teano G, Concia L, Carron L, Wolff L, Adamusová K, Fojtová M, Bourge M, Kramdi A, Colot V, Grossniklaus U, Bowler C, Baroux C, Carbone A, Probst AV, Procházková Schrumpfová P, Fajkus J, Amiard S, Grob S, Bourbousse C, Barneche F. (2022). Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis. Cell Reports (in press).
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Baroux C. (2021). Three-dimensional genome organization in epigenetic regulations: cause or consequence? Curr Opin Plant Biol, 61:102031.
Hernandez-Lagana E, Mosca G, Sato EM, Pires N, Frey A, Giraldo-Fonseca A, Grossniklaus U, Hamant O, Godin C, Boudaoud A, Grimanelli D, Autran D, Baroux C. (2021). Organ geometry channels cell fate in the Arabidopsis ovule primordium. eLife 10: 66031.
Mermet S, Voisin M, Mordier J, Dubos T, Tutois S, Tuffery P, Baroux C, Tamura K, Probst AV, Vanrobays E, Tatout C. (2021). Evolutionary conserved protein motifs drive attachment of the plant nucleoskeleton at nuclear pores. bioRxiv, 2021.2003.2020.435662. doi:10.1101/2021.03.20.435662.
Wyler M, Stritt C, Walser JC, Baroux C, Roulin AC. (2020). Impact of Transposable Elements on Methylation and Gene Expression across Natural Accessions of Brachypodium distachyon. Genome Biol Evol, 12(11):1994-2001.
Dumur T, Duncan S, Graumann K, Desset S, Randall RS, Mittelsten Scheid O, Bass HW, Prodanov D, Tatout C and Baroux C. (2019) Probing the 3D architecture of the plant nucleus with microscopy approaches: challenges and solutions. Nucleus, 10:1, 181-212.
Dumur T, Duncan S, Graumann K, Desset S, Randall RS, Mittelsten Scheid O, Prodanov D, Tatout C and Baroux C. (2019) Probing the 3D architecture of the plant nucleus with microscopy approaches: challenges and solutions. Nucleus, 10:1, 181-212.
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Díaz M, Pecinková P, Nowicka A, Baroux C, Sakamoto T, Yuliani Gandha P, Jerábková H, Matsunaga H, Grossniklaus U, Pecinka A. (2019) The SMC5/6 Complex Subunit NSE4A Is Involved in DNA Damage Repair and Seed Development. The Plant Cell 31(7):1579-1597.
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Rutowicz K, Lirski M, Merma B, Teano G, Schubert J, Mestiri I, Krote MA, Fabrice TN, Fritz S, Grob S,
Ringli C, Cherkezyan L, Barneche, Jerzmanowski A, Baroux C. (2019) Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis.
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Ashenafi M, Baroux C. (2018) Automated 3D gene position analysis using a customized Imaris plugin: XTFISHInsideNucleus. Methods Mol Biol. 1675:591-613.
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Baroux C, Schubert V. (2018) Technical Review: Microscopy and image processing tools to analyse plant chromatin - practical considerations. Methods Mol Biol;1675:537-589.
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Fabrice TN, Cherkezeyan L, Ringli C, Baroux C. (2018) Transmission Electron Microscopy Imaging to analyse chromatin density distribution at the nanoscale level. Methods Mol Biol. 1675:633-651.
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Kirioukhova O, Shah JN, Larsen DS, Tayyab M, Mueller NE, Govind G, Baroux C, Federer M, Gheyselinck J, Barrell PJ, Ma H, Sprunck S, Huettel B, Wallace H, Grossniklaus U*, Johnston AJ* (2018) Aberrant imprinting may underlie evolution of parthenogenesis. Sci Rep. 8(1):10626. (*co-authors)
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Parry G, Probst AV, Baroux C, Tatout C. (2018) Meeting report - INDEPTH kick-off meeting. J Cell Sci. 131(12). pii: jcs220558.
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She W, Baroux C, Grossniklaus U. (2018) Cell-Type Specific Chromatin Analysis in Whole-Mount Plant Tissues by Immunostaining. Methods Mol Biol. 1675:443-454.
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Baroux C, Barneche F (2017). Unreeling the chromatin thread: a genomic perspective on organization around the periphery of the Arabidopsis nucleus. Genome Biology 18:97
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Kotlinski M, Knizewski L, Muszewska A, Rutowicz K, Lirski M, Schmidt A, Baroux C, Ginalski K, Jerzmanowski A. (2017) Phylogeny-based systematization of Arabidopsis proteins with histone H1 globular domain (GH1). Plant Physiol. Mar 15. pp: pp.00214.
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Mendocilla-Sato E, Baroux C. (2017). Analysis of 3D cellular organisation of fixed plant tissues using a user-guided platform for image segmentation. Bio-Protocols 7(12): e2355.
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Mendocilla-Sato E, She W, Baroux C. (2017) 3D imaging of whole-mount ovules at cellular resolution to study female germline development in rice. Methods Mol Biol. 1669:37-45.
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Vogiatzaki E, Baroux C, Jung JY and Poirier Y (2017). PHO1 exports phosphate from the chalazal seed coat to the embryo in developing Arabidopsis seeds. Curr Biol. 27(19):2893-2900.e3.
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Baroux C*, Pecinka A, Fuchs J, Kreth G, Schubert I, Grossniklaus U. (2016) Non-random chromosome arrangement in triploid endosperm nuclei. Chromosoma, in press (*, corresponding author)
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Pires ND, Bemer M, Müller LM, Baroux C, Spillane C, Grossniklaus U. (2016) Quantitative Genetics Identifies Cryptic Genetic Variation Involved in the Paternal Regulation of Seed Development. PLOS Genetics. doi:10.1371/journal.pgen.1005806.
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Baroux C, Autran D. (2015) Chromatin dynamics during cellular differentiation in the female reproductive lineage of flowering plants. Plant Journal 83(1):160-176.
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Baroux C, Grossniklaus U. (2015) Chapter Ten - The Maternal-to-Zygotic Transition in Flowering Plants: Evidence, Mechanisms, and Plasticity, In: Howard D. Lipshitz, Editor(s), Current Topics in Developmental Biology, Academic Press, Volume 113, Pages 351-371, ISSN 0070-2153, ISBN 9780124095236.
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She W, Baroux C. (2015) Chromatin dynamics in Pollen Mother Cells underpin a common scenario at the somatic-to-reproductive fate transition of both the male and female lineages in Arabidopsis. Front. Plant Sci. 6:294. doi:10.3389/fpls.2015.00294.
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She W, Baroux C. (2014) Chromatin Dynamics During Sexual Plant Reproduction. Front Plant Sci. 5: 354.
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She W, Grimanelli D, Baroux C. (2014) An efficient method for quantitative, single-cell analysis of chromatin modification and nuclear organization in whole-mount ovules in Arabidopsis. J. Vis. Exp. (88), e51530, doi:10.3791/51530.
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Baroux C, Autran D, Raissig MT, Grimanelli D, Grossniklaus U. (2013) Parental contributions to the transcriptome of early plant embryos. Curr Opin Genet Dev 23:72-74.
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Raissig MT, Bemer M, Baroux C, Grossniklaus U. (2013) Genomic Imprinting in the Arabidopsis Embryo Is Partly Regulated by PRC2. PLOS Genetics (12):e1003862. doi: 10.1371.
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Raissig MT, Gagliardini V, Jaenisch J, Grossniklaus U, Baroux C. (2013) Efficient and Rapid Isolation of Early-stage Embryos from Arabidopsis thaliana Seeds. J. Vis. Exp. (76), e50371.
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She W, Grimanelli D, Rutowicz K, Whitehead MW, Puzio M, Kotlinski M, Jerzmanowski A, Baroux C. (2013) Chromatin reprogramming during the somatic-to-reproductive cell fate transition in plants. Development 140(19):4008-19
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Ngo QA*, Baroux C, Guthörl D, Mozerov P, Collinge MA, Sundaresan V, Grossniklaus U. (2012) The Armadillo repeat gene ZAK IXIK promotes Arabidopsis early embryo and endosperm development through a distinctive gametophytic maternal effect. Plant Cell 24:4026-4043. (*Corresponding author)
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Autran D*, Baroux C*, Raissig MT, Lenormand T, Wittig M, Grob S, Steimer A, Barann M, Klostermeier UC, LeblancO , Vielle-Calzada J-P, Rosenstiel P, Grimanelli D, Grossniklaus U. (2011) Maternal epigenetic pathways control parental contributions to Arabidopsis early embryogenesis, Cell, 145(5):707-19. *Equal Contribution
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Baroux C, Raissig MT, Grossniklaus U. (2011) Epigenetic regulation and reprogramming during gamete formation in plants. Curr Opin Genet Dev. 21(2):124-33.
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Raissig MT, Baroux C, Grossniklaus U. (2011) Regulation and Flexibility of Genomic Imprinting during Seed Development. Plant Cell 23(1):16-26.
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Schmidt A, Wüst SE, Vijverberg K, Baroux C, Kleen D, Grossniklaus, U. (2011) Transcripome analysis of the Arabidopsis megaspore mother cell uncovers the Importance of RNA helicases for plant germline development. PLoS Biol 9(9): e1001155.
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Pillot M, Baroux C, Vazquez MA, Autran D, Leblanc O, Vielle-Calzada JP, Grossniklaus U, Grimanelli D. (2010) Embryo and endosperm inherit distinct chromatin and transcriptional states from the female gametes in Arabidopsis. Plant Cell. 22(2):307-20.
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Baroux C, Autran D, Gillmor CS, Grimanelli D, Grossniklaus U. (2008) The maternal to zygotic transition in animals and plants. Cold Spring Harb Symp Quant Biol. 73:89-100.
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Guggisberg A, Baroux C, Grossniklaus U, Conti E. (2008) Genomic origin and organization of the allopolyploid Primula egaliksensis investigated by in situ hybridization. Ann Bot (Lond) 101:919-927.
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Baroux C, Pecinka A, Fuchs J, Schubert I, Grossniklaus U. (2007) The triploid endosperm genome of Arabidopsis adopts a peculiar, parental-dosage-dependent chromatin organization. Plant Cell 19(6):1782-94.
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Baroux C, Pien S, Grossniklaus U. (2007) Chromatin modification and remodeling during early seed development. Curr Opin Genet Dev 17:1-7.
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Spillane C, Schmid KJ, Laoueillé-Duprat S, Pien S, Escobar-Restrepo JM, Baroux C, Gagliardini V, Page DR, Wolfe KH, Grossniklaus U. (2007) Positive darwinian selection at the imprinted MEDEA locus in plants. Nature 448:349-52.
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Baroux C, Gagliardini V, Page DR, Grossniklaus U. (2006) Dynamic regulatory interactions of Polycomb group genes: MEDEA autoregulation is required for imprinted gene expression in Arabidopsis. Genes Dev. 20(9):1081-6.
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Geisler M,
Blakeslee JJ, Bouchard R, Lee OR, Vincenzetti V,
Bandyopadhyay A, Titapiwatanakun B, Peer WA,
Bailly A, Richards EL, Ejendal KF, Smith AP,
Baroux C, Grossniklaus U, Muller A, Hrycyna CA,
Dudler R, Murphy AS, Martinoia E.
(2005) Cellular
efflux of auxin catalyzed by the Arabidopsis
MDR/PGP transporter AtPGP1.
Plant J.
44(2):179-94.
Link
Baroux C, Blanvillain R, Betts H, Batoko H, Craft J, Martinez A, Gallois P, Moore I. (2005) Predictable activation of tissue-specific expression from a single gene locus using the pOp/LhG4 transactivation system in Arabidopsis. Plant Biotech J. 3(1):91-101.
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Craft J, Samalova M, Baroux C, Townley H, Martinez A, Jepson I, Tsiantis M, Moore I. (2005) New pOp/LhG4 vectors for stringent glucocorticoid-dependent transgene expression in Arabidopsis. Plant J. 41(6):899-918.
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Page
DR, Köhler C,
da Costa-Nunes JA, Baroux C, Moore JM, Grossniklaus U. (2004)
Intrachromosomal
excision of a hybrid Ds element induces large genomic deletions
in Arabidopsis. Proc. Natl. Acad. Sci. USA
101(9):2969-74.
Link
Baroux
C, Fransz P, Grossniklaus
U. (2004) Nuclear fusions contribute to polyploidization of the
gigantic
nuclei in the chalazal endosperm of Arabidopsis. Planta
220(1):38-46.
Link
Spillane C,
Baroux C,
Escobar-Restrepo J-M, Page DR, Laoueille S, Grossniklaus U. (2004)
Transposons and tandem repeats are not involved in the control of
genomic
imprinting at the MEDEA locus in Arabidopsis.
69:465-75
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Grossniklaus U, Moore JM, Brukhin V, Gheyselinck J, Baskar R, Vielle-Calzada J-P, Baroux C, Page DR, Spillane C. (2003) Engineering of apomixis in crop plants: what can we learn from sexual model systems. In: Plant Biotechnology 2002 and Beyond (Vasil I. ed), Kluver Academic Pulishers, Dordrecht, pp. 309-314.
Baroux
C, Spillane C, Grossniklaus U. (2002) Evolutionary origins of the
endosperm
in flowering plants. Genome Biol. 3:1026.1-1026.5.
Link
Baroux
C, Spillane C, Grossniklaus
U. (2002) Genomic imprinting during seed development. In Advances
in
Genetics: Homology Effects (Dunlap JC, Wu C-T. eds). Academic
Press,
San Diego, USA. pp. 165-214.
Link
Baroux C, Blanvillain R, Gallois P. (2001) Paternally inherited transgenes are down-regulated but retain low activity during early embryogenesis in Arabidopsis. FEBS Lett. 509(1):11-6.
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Baroux C, Blanvillain R, Moore IR, Gallois P. (2001) Transactivation of BARNASE under the AtLTP1 promoter affects the basal pole of the embryo and shoot development of the adult plant in Arabidopsis. Plant J. 28(5):503-15.
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