Publications

My publications are also listed on my ORCID profile and on my Google Scholar profile.

In bold: these authors contributed equally.

PhD Thesis

• Combining knowledge-based and sequence comparison approaches to elucidate metabolic functions, from pathways to communities .
  Arnaud Belcour, supervised by Samuel Blanquart and Anne Siegel.
  Jury: Delphine Ropers (Rapporteur), David Vallenet (Rapporteur), Cédric Lhoussaine (President), Olivier Dameron (Examiner), Karoline Faust (Examiner), Fabien Jourdan (Examiner).
  Document at HAL (2022).

Article

• Evolutionary genomics of the emergence of brown algae as key components of coastal ecosystems.
  France Denoeud, Olivier Godfroy, Corinne Cruaud, Svenja Heesch, Zofia Nehr, Nachida Tadrent, Arnaud Couloux, Loraine Brillet-Guéguen, Ludovic Delage, Dean Mckeown, Taizo Motomura, Duncan Sussfeld, Xiao Fan, Lisa Mazéas, Nicolas Terrapon, Josué Barrera-Redondo, Romy Petroll, Lauric Reynes, Seok-Wan Choi, Jihoon, Kavitha Uthanumallian, Kenny Bogaert, Céline Duc, Pélagie Ratchinski, Agnieszka Lipinska, Benjamin Noel, Eleanor A. Murphy, Martin Lohr, Ananya Khatei, Pauline Hamon-Giraud, Christophe Vieira, Komlan Avia, Svea Sanja Akerfors, Shingo Akita, Yacine Badis, Tristan Barbeyron, Arnaud Belcour, Wahiba Berrabah, Samuel Blanquart, Ahlem Bouguerba-Collin, Trevor Bringloe, Rose Ann Cattolico, Alexandre Cormier, Helena Cruz de Carvalho, Romain Dallet, Olivier De Clerck, Ahmed Debit, Erwan Denis, Christophe Destombe, Erica Dinatale, Simon Dittami, Elodie Drula, Sylvain Faugeron, Jeanne Got, Louis Graf, Agnès Groisillier, Marie-Laure Guillemin, Lars Harms, William John Hatchett, Bernard Henrissat, Galice Hoarau, Chloé Jollivet, Alexander Jueterbock, Ehsan Kayal, Andrew H. Knoll, Kazuhiro Kogame, Arthur Le Bars, Catherine Leblanc, Line Le Gall, Ronja Ley, Xi Liu, Steven T. LoDuca, Pascal Jean Lopez, Philippe Lopez, Eric Manirakiza, Karine Massau, Stéphane Mauger, Laetitia Mest, Gurvan Michel, Catia Monteiro, Chikako Nagasato, Delphine Nègre, Eric Pelletier, Naomi Phillips, Philippe Potin, Stefan A. Rensing, Ellyn Rousselot, Sylvie Rousvoal, Declan Schroeder, Delphine Scornet, Anne Siegel, Leila Tirichine, Thierry Tonon, Klaus Valentin, Heroen Verbruggen, Florian Weinberger, Glen Wheeler, Hiroshi Kawai, Akira F. Peters, Hwan Su Yoon, Cécile Hervé, Naihao Ye, Eric Bapteste, Myriam Valero, Gabriel V. Markov, Erwan Corre, Susana M. Coelho, Patrick Wincker, Jean-Marc Aury and J. Mark Cock.
  Article at Cell (2024).

• SPARTA: Interpretable functional classification of microbiomes and detection of hidden cumulative effects.
  Baptiste Ruiz, Arnaud Belcour, Samuel Blanquart, Sylvie Buffet-Bataillon, Isabelle Le Huërou-Luron,Anne Siegel and Yann Le Cunff. .
  Article at PLoS Computational Biology (2024).

• Empirical evidence for metabolic drift in plant and algal lipid biosynthesis pathways .
  Maëlle Zonnequin, Arnaud Belcour, Ludovic Delage, Anne Siegel, Samuel Blanquart, Catherine Leblanc, Gabriel V. Markov.
  Article at Frontiers in Plant Science (2024).

• Inferring and comparing metabolism across heterogeneous sets of annotated genomes using AuCoMe.
  Arnaud Belcour, Jeanne Got, Méziane Aite, Ludovic Delage, Jonas Collén, Clémence Frioux, Catherine Leblanc, Simon M. Dittami, Samuel Blanquart, Gabriel V. Markov and Anne Siegel​.
  Article at Genome Research (2023).

• Robustness analysis of metabolic predictions in algal microbial communities based on different annotation pipelines.
  Elham Karimi​, Enora Geslain, Arnaud Belcour, Clémence Frioux, Méziane Aïte, Anne Siegel, Erwan Corre and Simon M. Dittami.
  Article at PeerJ (2021).

• Semi-Quantitative Targeted Gas Chromatography-Mass Spectrometry Profiling Supports a Late Side-Chain Reductase Cycloartenol-to-Cholesterol Biosynthesis Pathway in Brown Algae.
  Jean Girard, Goulven Lanneau, Ludovic Delage, Cédric Leroux, Arnaud Belcour, Jeanne Got, Jonas Collén, Catherine Boyen, Anne Siegel, Simon M. Dittami, Catherine Leblanc and Gabriel V. Markov.
  Article at Journal of Frontiers in Plant Science (2021).

• Comparative transcriptome analysis provides insights into the response of Ulva compressa to the fluctuating salinity conditions.
  Qikun Xing, Guiqi Bi, Min Cao, Arnaud Belcour, Méziane Aïte, Zhaolan Mo and Yunxiang Mao.
  Article at Journal of Phycology (2021).

• Metage2Metabo, microbiota-scale metabolic complementarity for the identification of key species.
  Arnaud Belcour, Clémence Frioux, Méziane Aite, Anthony Bretaudeau, Falk Hildebrand and Anne Siegel.
  Article at eLife (2020), code.

• Soil microbiota influences clubroot disease by modulating Plasmodiophora brassicae and Brassica napus transcriptomes.
  Stéphanie Daval, Kévin Gazengel, Arnaud Belcour, Juliette Linglin, Anne-Yvonne Guillerm-Erckelboudt, Alain Sarniguet, Maria J Manzanares-Dauleux, Lionel Lebreton and Christophe Mougel.
  Article at Microbial Biotechnology (2020).

• Inferring biochemical reactions and metabolite structures to cope with metabolic pathway drift.
  Arnaud Belcour, Jean Girard, Méziane Aïte, Ludovic Delage, Camille Trottier, Charlotte Marteau, Cédric Leroux, Simon M Dittami, Pierre Sauleau, Erwan Corre, Jacques Nicolas, Catherine Boyen, Catherine Leblanc, Jonas Collén, Anne Siegel and Gabriel Markov.
  Article at iScience (2020), bibtex, code.

• Genome–Scale Metabolic Networks Shed Light on the Carotenoid Biosynthesis Pathway in the Brown Algae Saccharina japonica and Cladosiphon okamuranus.
  Delphine Nègre, Méziane Aïte, Arnaud Belcour, Clémence Frioux, Loraine Brillet-Guéguen, Xi Liu, Philippe Bordron, Olivier Godfroy, Agnieszka Lipinska, Catherine Leblanc, Anne Siegel, Simon Dittami, Erwan Corre and Gabriel Markov.
  Article at Antioxidants (2019), bibtex.

• Computational analysis of the Plasmodiophora brassicae genome: mitochondrial sequence description and metabolic pathway database design.
  Stéphanie Daval, Arnaud Belcour, Kevin Gazengel, Ludovic Legrand, Jerome Gouzy, Ludovic Cottret, Lionel Lebreton, Yoann Aigu, Christophe Mougel and Maria Manzanares-Dauleux.
  Article at Genomics (2019), bibtex.

Preprint

• EsMeCaTa: Estimating metabolic capabilities from taxonomic affiliations.
  Arnaud Belcour, Baptiste Ruiz, Clémence Frioux, Samuel Blanquart and Anne Siegel.
  Article at bioRxiv (2022), code.