Dr Yacine Badis

Macroalgal Pathology PDRA

A molecular geneticist specializing on plant and algal pathology.

I use classic microscopy and molecular approaches to discover and characterize new algal diseases, and Bioinformatic/Omics strategies to decipher the molecular mechanisms of algal pathogen interactions.

I am on a 2 year leave of absence from SAMS starting in the spring/summer 2018 to pilot genome editing of brown algae at the Biological Station of Roscoff, France.

Contact details:

My main interests are to

  • >decipher red/brown algal molecular defence mechanisms (pathogen detection mechanisms, elicitation of defences, systemic signals, antimicrobial compounds) and
  • >get an insight the evolution of different virulence strategies in early diverging oomycetes from a genomic perspective (comparative genomics, gene family expansion, so-called effectors?) to highlight the molecular basis influencing host-range and trans-kingdom host jumps in biotrophic oomycete pathogens.

I also design custom data mining bioinformatic tools dedicated to biodiversity exploration. I am also involved in the development of genome editing tools (ASSEMBLE+) and quantitative genetics (GENIALG, QTL mapping and Genome Wide association Studies) strategies applied to the model brown alga Ectocarpus siliculosus.

 

Current research projects

ASSEMBLE+. Funded by EU through EMBRC 2017-20

GENIALG: GENetic diversity exploitation for Innovative macro-ALGal biorefinery. Funded by EU H2020 2017-20

Rad-Menéndez, C., Gerphagnon, M., Garvetto, A., Arce, P., Badis, Y., Sime-Ngando, T. and Gachon, C.M., 2018. Rediscovering Zygorhizidium affluens Canter: Molecular Taxonomy, Infectious Cycle, and Cryopreservation of a Chytrid Infecting the Bloom-Forming Diatom Asterionella formosa. Appl. Environ. Microbiol., 84(23), pp.e01826-18.

Badis, Y., Klochkova, T.A., Strittmatter, M., Garvetto, A., Murúa, P., Sanderson, J.C., Kim, G.H. and Gachon, C.M., 2018. Novel species of the oomycete Olpidiopsis potentially threaten European red algal cultivation. Journal of Applied Phycology, pp.1-12.

Susan H Brawley, Nicolas A Blouin, Elizabeth Ficko-Blean, Glen L Wheeler, Martin Lohr, Holly V. Goodson, Jerry Jenkins, Crysten E. Blaby-Haas, Katherine E Helliwell, Cheong Xin Chan, Tara Marriage, Debashish Bhattacharya, Anita Klein, Yacine Badis, Juliet Brodie, Yuanyu Cao, Jonas Collen, Simon M Dittami, Claire M.M. Gachon, Beverley R. Green, Steven J Karpowicz, Jay W Kim, Ulrich Johan Kudahl, Senjie Lin, Gurvan Michel, Maria Mittag, Bradley J.S.C Olson, Jasmyn L. Pangilinan, Yi Peng, Huan Qiu, Shengqiang Shu, John T Singer, Alison G Smith, Brittany Sprecher, Volker Wagner, Wenfei Wang, Zhi-Yong Wang, Juying Yan, Charles Yarish, Simone Zauner-Riek, Yun-yun Zhuang, Yong Zou, Erika A Lindquist, Jane Grimwood, Kerrie W. Barry, Daniel S. Rokhsar, Jeremy Schmutz, John W Stiller, Arthur R. Grossman, Simon Prochnik, Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta), Proceedings of the National Academy of Science, Approved June 2017

Valero M, Guillemin M-L, Destombe C, Jacquemin B, Gachon CMM, Badis Y, Buschmann AH, Camus C, Faugeron S. Perspectives on domestication research for sustainable seaweed aquaculture Perspectives in Phycology in press, online publication Feb 2017.

A3 - Gachon, CMM, Strittmatter M, Badis Y, Fletcher KI, Van West P, Müller DG - Pathogens of brown algae: culture studies of Anisolpidium ectocarpii and A. rosenvingei reveal that the Anisolpidiales are uniflagellated oomycetes. European Journal of Phycology. 2017 52-133:148

Cottier-Cook, E.J., Nagabhatla, N., Badis, Y., Campbell, M., Chopin, T, Dai, W, Fang, J., He, P, Hewitt, C, Kim, G. H., Huo, Y, Jiang, Z, Kema, G, Li, X, Liu, F, Liu, H, Liu, Y, Lu, Q, Luo, Q, Mao, Y, Msuya, F. E, Rebours, C, Shen, H., Stentiford, G. D., Yarish, C, Wu, H, Yang, X, Zhang, J, Zhou, Y, Gachon, C. M. M. (2016). Safeguarding the future of the global seaweed aquaculture industry.
 United Nations University and Scottish Association for Marine Science Policy Brief. ISBN 978-92-808-6080-1. 12pp

Bonhomme M, André O, Badis Y, Ronfort J, Burgarella C, Chantret N, Prosperi JM, Briskine R, Mudge J, Debéllé F, Navier H, Miteul H, Hajri A, Baranger A, Tiffin P, Dumas B, Pilet-Nayel ML, Young ND, Jacquet C - High-density genome-wide association mapping implicates an F-box encoding gene in Medicago truncatula resistance to Aphanomyces euteiches. New Phytologist. 2014 Mar;201(4):1328-42

Badis Y, Bonhomme M, Lafitte C, Huguet S, Balzergue S, Dumas B, Jacquet C (2015). Transcriptome analysis highlights preformed defences and signalling pathways controlled by the prAe1 quantitative trait locus (QTL), conferring partial resistance to Aphanomyces euteiches in Medicago truncatula. Molecular Plant Pathology, 2015 Dec;16(9):973-86

Employment history

Since 2015 Macroalgal Pathology PDRA

 

Qualifications

2014 PhD. UPSIII (France)

2011 MSc. UPS III

2009 BSc. UPS III