Senior researcher CNRS

Laurence Garczarek

I am a research scientist at CNRS since 2003. My main research interest lies in understanding the genetic and functional diversity of marine picocyanobacteria and the consequences on their adaptation/acclimation capacity to various environmental factors

 

MAJOR CURRENT RESEARCH PROJECTS

  • ANR EFFICACY (2020-22, PI: L Garczarek and F Partensky)
    Ecological Fitness of Light Color Acclimation in Marine Cyanobacteria
  • ANR TONGA (2019-21, role: Local coordinator, PI: Cécile Giueu and Sophie  Bonnet))
    Shallow hydroThermal sOurces of trace elemeNts: potential impacts on biological productivity and the bioloGicAl carbon pump
  • GOBITMAP (2019-20, coord: S. Chaffron)
    Défi Modélisation du vivant – 2019 : From Global Ocean Systems Ecology to BIogeochemisTry MoleculAr Probes
  • SAD RoskoBaz (2018-20, PIs: L Guillou and L Garczarek))
    Development of a database of genetic markers to infer temporal variations of marine microbial communities in the English Channel
  • ANR CINNAMON (2018-2021, PI: L Garczarek))
    Analyse multi-échelles de l’adaptation à la carence en Fer chez un organisme clé du phytoplancton marin, dans un contexte de changement global
  • Assemble Plus (Projet Européen H2020-INFRAIA-2016-2017, 2017-20)
    Partner JRA1-Genomics Observatories and JRA3-Functional Genomics)
  • Program IE EMBRc
    European Marine Biological Resource Centre

 

MAIN SCIENTIFIC INTEREST

  • Diversity and ecology of marine photosynthetic prokaryotes
  • Genomics, genetics and evolution of marine picocyanobacteria
  • Physiology and regulation of the response to environmental stresses

 

COLLABORATIONS

  • Silvia Acinas, ICM−CSIC, Spain
  • David J. Scanlan, Univeristy of Warwick, UK
  • David Kehoe, Indiana University, USA
  • Damien Eveillard and Samuel Chaffron, University of Nantes, France
  • François-Yves Bouget and Stéphane Blain, LOMIC, Observatoire de Banyuls
  • Julia Uitz and Cécile Guieu,  Laboratoire d’Océanographie de Villefranche
  • Stephanie Dutkiewicz, Department of Earth, Atmospheric and Planetary Sciences, MIT Boston, USA
  • Jeff Huisman, University of Amsterdam, Netherlands
  • Hélène Morlon, Center for Computational Biology, ENS, Paris
  • Sophie Bonnet, Mediterranean Institute of Oceanography - M.I.O, Marseille

 

PHD STUDENTS

  • 2019-22 Louison Dufour, Sorbonne Université (co-direction with F. Partensky)
  • 2018-21 Mathilde Ferrieux, Sorbonne Université (co-direction with F. Partensky)
  • 2017-20 Ulysse Guyet, Sorbonne Université (co-direction with D. Eveillard)
  • 2015-17 Hugo Doré, UPMC
  • 2015-17 Théophile Grébert, UPMC (co-direction with F. Partensky)
  • 2011-15 Gregory Farrant, UPMC
  • 2009-13 Florian Humily, UPMC (co-direction with F. Partensky)
  • 2007-10 Daniella Mella, UPMC
  • 2006-10 Christian Kolowrat (co-direction with F. Partensky)
  • 2004-06 Ludovic Joubin, UPMC

 

POST-DOCS

  • 2020-22 Jade Leconte (ANR CINNAMON/EFFICACY)
  • 2018-21 Francisco Cornejo Catillo (Marie Curie Fellowship)
  • 2018-21 Gregory Farrant (SAD Region Bretagne/Assemble Plus)
  • 2018-19 Hugo Doré (ANR CINNAMON)
  • 2014-16 Ngoc AN Nguyen (SAD Région Bretagne / ANR SAMOSA)
  • 2006-08 Christophe Boutte (SAD Région Bretagne)
  • 2006-08 Nicolas Blot (ANR MetaSyn, co-direction with F. Partensky)
  • 2003-06 Julia Holtzendorff (EU Margenes Project, co-direction with F. Partensky)

 

Publications

COMPARATIVE GENOMICS

• Doré H, Farrant GK, Guyet U, Haguait J, Humily F, Ratin M, Pitt F, Ostrowski M, Six C, Brillet-Guéguen L, Hoebeke M, Bisch A, Lecorguillé G, Corre E, Labadie K, Aury JM, Wincker P, Dong HC, Jae HN, Eveillard D, Scanlan DJ, Partensky F and Garczarek L. 2020.
Evolutionary mechanisms of long-term genome diversification associated with niche partitioning in marine picocyanobacteria. Frontiers in Microbiology doi.org/10.3389/fmicb.2020.567431.

• Farrant, GK, Hoebeke, M., Partensky, F., Andres, G. and Garczarek, L. 2015.
WiseScaffolder: an algorithm for the semi-automatic scaffolding of Next Generation Sequencing data. BMC Bioinformatics 16:281.

• Dufresne, A., Ostrowski, M., Scanlan, D. J., Garczarek, L., Mazard, S., Palenik, B. P., Paulsen, I. T., Tandeau de Marsac, N., Wincker, P., Dossat, C., Ferriera, S., Johnson, J., Post, A. F., Hess, W. R. & Partensky, F. 2008.
Unraveling the genomic mosaic of a ubiquitous genus of marine cyanobacteria. Genome Biology 9:R90. 16pp (FI=6,153).

• Six C., Thomas J.-C., Dufresne A., Garczarek L., Ostrowski M., Scanlan D.J., Arrouy N. & Partensky F. 2007.
Genes encoding phycobilisome components of marine Synechococcus cyanobacteria have evolved independently from the core genome. Genome Biology 8(12):R259, 22pp (FI=6,153).

• Dufresne, A., Garczarek L. et Partensky F. 2005.
Accelerated evolution associated with genome reduction in a free-living prokaryote. Genome Biology 6:R14 (10 pp.) (IF: 6.153).

 

GENETIC DIVERSITY AND GEOGRAPHICAL DISTRIBUTION

• Holtrop T, Huisman J, Stomp M, Aert J, Grébert T, Partensky F, Garczarek L& Jan van der Woerd H.
H2O’s molecular vibrations shed light on spectral niches for photosynthesis in lakes and oceans. In press for Nature Communications.

• Xia X., Partensky F., Garczarek L., Suzuki K., Guo C., Cheung S.Y. & Liu H.: 2017.
Phylogeography and pigment type diversity of Synechococcus cyanobacteria in surface waters of the northwestern Pacific Ocean. Environ. Microbiol.19: 142–158.  http://doi.org/10.1111/1462-2920.13541

• Paulsen M.L., Bratbak G., Doré H., Garczarek L., Seuthe L., Müller O., Sandaa R.H., Larsen A. 2016.
Synechococcus in the Atlantic gateway to the Arctic Ocean. Frontiers in Marine Science  http://doi.org/10.3389/fmars.2016.00191.

• Farrant GK, Doré H, Cornejo-Castillo FM, Partensky F, Ratin M, Ostrowski M, Pitt FD, Wincker P, Scanlan DJ, Iudicone D, Acinas SG, Garczarek L 2016
Delineating ecologically significant taxonomic units from global patterns of marine picocyanobacteria. Proc Natl Acad Sci USA doi/10.1073/pnas.1524865113

• Mella-Flores D., Mazard S., Humily S., Partensky F., Mahé F., Bariat L., Courties C., Marie D., Ras J., Mauriac R., Jeanthon C., Bendif E.M., Ostrowski M., Scanlan D.J., Garczarek L. 2011.
Is the distribution of Prochlorococcus and Synechococcus ecotypes in the Mediterranean Sea affected by global warming? Biogeosciences 8, 2785–2804.

• Partensky, F. and Garczarek L. 2011.
Arms race in a drop of sea water. Nature 474:582-583. (commentaire invité d'article dans la section "News and Views")

• Garczarek, L., Hess, W., Holtzendorff, J., van der Staay, G.W.M., Partensky, F., 2000.
Multiplication of antenna genes as a major adaptation to low light in a marine prokaryote. Proceedings of the National Academy of Sciences of USA 97: 4098 -4101

 

META-OMICS AND FUNCTIONNAL DIVERSITY

• Caputi, L., [..], Garczarek L., d'Ortenzio F., Testor P., Not F., Ribera d'Alcalà, M., Wincker P., Bowler C., Iudicone D. 2019.
Community-level response to natural perturbations in open ocean planktonic ecosystems. Global Biogeochemical Cycles DOI: 10.1029/2018GB006022

• Villar E, Farrant G, Follows M, Garczarek L, Speich S, Audic S, Bittner L, Blanke B, Brum JR, Brunet C, et al. 2015.
Environmental disturbance in Agulhas rings affects inter-ocean plankton dispersal. Science 348: 6237 p1261447-1.

• Mazard, S., Ostrowski, M., Garczarek,, L., Scanlan, D.J. 2011.
A targeted metagenomic approach to determine the ‘population genome’ of marine Synechococcus. In Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. F. J. de Bruijn (Editor).

• Humily F. Farrant, G.K., Marie D., Partensky F., Mazard S., Perennou M., Labadie K., Aury J.M., Wincker P., Nicolas Segui A., Scanlan D.J. and Garczarek L. 2014.
Development of a targeted metagenomic approach to study a genomic region involved in light harvesting in marine Synechococcus. FEMS Microbiol. Ecol., 88 231–249.

 

PHYSIOLOGY

• Guyet U, Nguyen NA, Doré H, Haguait J, Pittera J, Conan M, Ratin M, Corre E, Le Corguillé G, Brillet-Guéguen L, Hoebeke M, Six C, Steglich C, Siegel A, Eveillard D, Partensky F and Garczarek L. 2020
Synergic effects of temperature and irradiance on the physiology of the marine Synechococcus strain WH7803. Frontiers in Microbiology section Aquatic Microbiology doi:10.3389/fmicb.2020.01707

• Palacio AS, Cabello AM, García FC, Labban A, Morán XAG, Garczarek L, Alonso-Sáez L and López-Urrutia A. 2020
Changes in population age-structure obscure the temperature-size rule in marine cyanobacteria. Frontiers in Microbiology section Aquatic Microbiology doi.org/10.3389/fmicb.2020.02059.

• Breton S, Jouhet J, Guyet U, Gros V, Pittera J, Demory D, Partensky F, Doré H, Ratin M, Maréchal E, Nguyen NA, Garczarek L & Six C. 2019
Unveiling membrane thermoregulation strategies in marine Synechococcus temperature ecotypes. Submitted to the New Phytologist doi.org/10.1111/nph.16239.

• Pittera J., Jouhet J., Breton S., Garczarek L., Partensky F., Maréchal E., Nguyen N.A, Doré H., Ratin M. Pitt F.D., Scanlan D.J. and Six C. 2017.
Thermoacclimation and genome adaptation of the membrane lipidome in marine Synechococcus. Environ Microbiol. doi: 10.1111/1462-2920.13985

• Partensky F., Six C, Ratin M., Garczarek L., Vaulot D., Probert I., Calteau A, Gourvil P., Marie D., Grébert T., Bouchier C., Le Panse S., Gachenot M., Rodríguez F. and Garrido J.L. 2018.
A novel species of the marine cyanobacterium Acaryochloris with a unique pigment content and lifestyle. Sci Rep. 2018 8:9142. doi: 10.1038/s41598-018-27542-7.

• Partensky F., Mella-Flores D., Six C., Garczarek L., Czjzek M., Kotabova E., Felcmanová K., and Prasil O. 2018.
Comparison of photosynthetic performances of marine picocyanobacteria with different configurations of the oxygen-evolving complex. Photosynth Res. 2018 Jun 25. doi: 10.1007/s11120-018-0539-3.

• Perez Sepulveda B., Pitt F., N’Guyen A.N., Ratin M., Garczarek L., Millard A., Scanlan D.J. 2018
Relative stability of ploidy in a marine Synechococcus across various growth conditions. Submitted to Environmental Microbiology Report doi:10.1111/1758-2229.12614

• Pittera J., Humily F, Ratin M., Thorel M. ., Garczarek L., & Six C. 2014.
Connecting thermal physiology and latitudinal niche partitioning in marine Synechococcus. ISME J. 1–16.

• Mella-Flores D., Six C., Ratin M., Partensky  F., Boutte C., Le Corguillé G., Marie D., Blot N., Gourvil P., Kolowrat C., Garczarek L. 2012.
Prochlorococcus and Synechococcus have evolved different adaptive mechanisms to cope with light and UV stress. Frontiers in Aquatic Microbiology 3:285.

• Blot, N., D. Mella-Flores, C. Six, G. Lecorguille, C. Boutte, A. Peyrat, A. Monnier, M. Ratin, P. Gourvil, D. A. Campbell and L. Garczarek. 2011.
Light history influences the response of the marine cyanobacterium Synechococcus sp. WH7803 to oxidative stress. Plant Physiology 156: 1934-1954 (FI= 6.451).

• Blot, N., Wu, X.-J., Thomas, J.-C., Zhang, J., Garczarek, L., Böhm, S., Tu, J. M., Zhou, M., Plöscher, M., Eichacker, L., Partensky, F., Scheer, H. & Zhao, K. H. 2009.
Phycourobilin in a unique trichromatic phycobiliprotein is formed post-translationally by a novel phycoerythrobilin lyase-isomerase. Journal of Biological Chemistry 284:9290–9298.

• Garczarek, L., Dufresne, A., Blot, N., Cockshutt, A.M., Peyrat, A., Campbell, D.A., Joubin, L & Six, C. 2008.
Function and evolution of the psbA gene family in marine Synechococcus: Synechococcus sp. WH7803 as a case study. ISME journal.

 

PIGMENT TYPES DIVERSITY AND DISTRIBUTION

• Holtrop T, Huisman J, Stomp M, Aert J, Grébert T, Partensky F, Garczarek L& Jan van der Woerd H. in press
H2O’s molecular vibrations shed light on spectral niches for photosynthesis in lakes and oceans. En revision pour à Nature Communications.

• Sanfilippo JE, Nguyen AA, Garczarek L, Karty JA, Pokhrel S, Strnat JA, Partensky F, Schluchter WM, and Kehoe DM. 2019.
Interplay between differentially expressed enzymes contributes to light color acclimation in marine Synechococcus. Proc Natl Acad Sci USA 116 (13) 6457-6462; https://doi.org/10.1073/pnas.1810491116

• Grébert T., Doré H., Partensky F., Farrant G.K., Boss E., Picheral M., Guidi L., Pesant S., Scanlan D.J., Wincker P., Acinas S.G., Kehoe D.M. & Garczarek L. 2018.
Light color acclimation: a key process in the global ocean distribution of Synechococcus cyanobacteria. Proceedings of the National Academy of Sciences of the USA https://doi.org/10.1073/pnas.1717069115

• Perez Sepulveda B., Pitt F., N’Guyen A.N., Ratin M., Garczarek L., Millard A., Scanlan D.J. 2018.
Relative stability of ploidy in a marine Synechococcus across various growth conditions. Submitted to Environmental Microbiology Report doi:10.1111/1758-2229.12614.

• Mahmoud RM., Sanfilippo J.E, Nguyen A.A., Strnat J.A., Partensky F., Garczarek L., El-Kassem N.A. Kehoea D.M. and Schluchter M. 2017.
Adaptation to blue light in marine Synechococcus requires MpeU, an enzyme with similarity to phycoerythrobilin lyase isomerases. Frontiers in Microbiology (section Microbial Physiology and Metabolism).  http://doi.org/10.3389/fmicb.2017.00243

• Sanfilippo JE, Nguyen AA, Karty JA, Shukla A, Schluchter WM, Garczarek L, Partensky F, Kehoe DM 2016.
A self-regulating genomic island encoding tandem regulators confers chromatic acclimation to marine Synechococcus. Proc Natl Acad Sci USA 113(21):6077-82.

• Humily F. Partensky F., Six C., Farrant, G.K., Ratin M., Marie D., and Garczarek L. 2013.
A gene island with two possible configurations is involved in chromatic acclimation in marine Synechococcus. PLOS One, vol 8, issue 12, e84459.

• Humily F. Farrant, G.K., Marie D., Partensky F., Mazard S., Perennou M., Labadie K., Aury J.M., Wincker P., Nicolas Segui A., Scanlan D.J. and Garczarek L. 2014.
Development of a targeted metagenomic approach to study a genomic region involved in light harvesting in marine Synechococcus. FEMS Microbiol. Ecol., 88 231–249.

• Kolowrat, C., Partensky, F., Mella-Flores, D., Le Corguillé, G., Boutte, C., Blot, N., Ratin, M., Ferréol, M., Lecomte, X., Gourvil, P., Lennon, J.F., Kehoe, D. and Garczarek, L. 2010
Ultraviolet stress delays chromosome replication in light/dark synchronized cells of the marine cyanobacterium Prochlorococcus marinus PCC9511. BMC Microbiology 10:204

 

REVIEWS / CHAPTERS

• Hess, W.R., Garczarek, L., Partensky, F.  in prep
Marine Cyanobacteria In The marine microbiome, 2nd Edition, L.J. Stal and M.S. Cretoiu (eds.), Springer International Publishing, Switzerland 2020.

• Lopez Dos Santos_A., Not F., Garczarek L., Ribeiro C., Guitierez A., Vaulot D., in prep
Use of metabarcoding in phytoplankton ecology in Advances in Phytoplankton Ecology: applications of emerging technologies, edit by Lesley Clementson, Ruth Eriksen  and Anusuya Willis (CSIRO)

• Sanfilippo JE, Garczarek L, Partensky F, and Kehoe DM 2019
Chromatic Acclimation in Cyanobacteria: A Diverse and Widespread Process for Optimizing Photosynthesis. Annual Review of Microbiology.

• Garczarek L. & Partensky F. « 40. 2019
Les apports de la méta-omique en écologie marine ». In D. Faure, D. Joly, S. Salamitou, 101 secrets de l’ADN, Paris : CNRS Éditions, ISBN: 9782271123237, pp.146-148.

• Partensky, F. et Garczarek, L., 2017
La couleur de l’eau dans L’océan à découvert -  Écologie, environnement, sciences de la Terre, CNRS édition.

• Hess W.R., Garczarek L., Pfreundt U. & Partensky F. 2016.
Phototrophic Microorganisms: The Basis of the Marine Food Web. In: The Marine Microbiome: An Untapped Source of Biodiversity and Biotechnological Potential (Stal LJ, Cretoiu MS eds), pp. 57-97. Springer International Publishing: Cham, http://doi.org/10.1007/978-3-319-33000-6_3

• Garczarek L., Farrant G.K. and Partensky F., 2016
Génomique comparative et métagénomique des picocyanobactéries marines. Dans La Génomique Environnementales - La révolution du séquençage à haut débit, Chapitre XI, ISTE Edition, ISBN : 978-1-78405-151-8.

Mazard, S., Ostrowski, M., Garczarek,, L., Scanlan, D.J. 2011.
A targeted metagenomic approach to determine the ‘population genome’ of marine Synechococcus. In Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. F. J. de Bruijn (Editor).

• Partensky, F. & Garczarek, L. 2010.
Prochlorococcus: Advantages and limits of minimalism. Annual review of Marine Science 2:305–31.

• Scanlan, D. J., Ostrowski, M., Mazard, S., Dufresne, A., Garczarek, L., Hess, W. R., Post, A. F., Hagemann, M., Paulsen, I. & Partensky, F. 2009.
Ecological genomics of marine picocyanobacteria. Microbiology and Molecular Biology Reviews 73: 249-299.