Cornet, L., Lupo, V., Declerck, S., & Baurain, D. (10 January 2024). Evaluation of Genomic Contamination Detection Tools and Influence of Horizontal Gene Transfer on Their Efficiency through Contamination Simulations at Various Taxonomic Ranks. Applied Microbiology, 4 (1), 124-132. doi:10.3390/applmicrobiol4010009 |
Cornet, L., Durieu, B., Baert, F., D'hooge Elisabeth, Collignon, D., Meunier, L., Lupo, V., Cleenwerck, I., Daniel, H.-M., Rigouts, L., Sirjacobs, D., Declerck, S., Vandamme, P., Wilmotte, A., Baurain, D., & Becker, P. (September 2023). The GEN-ERA toolbox: unified and reproducible workflows for research in microbial genomics [Paper presentation]. ECCO XLI – 2023, Bruxelles, Belgium. |
Jabri, H., Krings, S., Fall, P. A., Baurain, D., Daube, G., & Taminiau, B. (10 August 2023). Microbiota Profiling on Veterinary Faculty Restroom Surfaces and Source Tracking. Microorganisms, 11 (8), 2053. doi:10.3390/microorganisms11082053 |
Meunier, L., Baurain, D., & Cornet, L. (2023). AMAW: automated gene annotation for non-model eukaryotic genomes. F1000Research, 12, 186. doi:10.12688/f1000research.129161.1 |
Cornet, L., Durieu, B., Baert, F., D'hooge, E., Colignon, D., Meunier, L., Lupo, V., Cleenwerck, I., Daniel, H.-M., Rigouts, L., Sirjacobs, D., Declerck, S., Vandamme, P., Wilmotte, A., Baurain, D., & Becker, P. (28 December 2022). The GEN-ERA toolbox: unified and reproducible workflows for research in microbial genomics. GigaScience, 12. doi:10.1093/gigascience/giad022 |
Baurain, D. (25 November 2022). Au-delà de l’Ancien Testament... Les données de
séquences génétiques [Paper presentation]. Colloque annuel de la SRSL : Nombres, images et autres données, Liège, Belgium. |
Cornet, L., & Baurain, D. (September 2022). A guided tour into genomic contamination detection [Poster presentation]. Reconstructing the human past: using ancient and modern genomics, Heidelberg, Germany. |
Cornet, L., Cleenwerck, I., Praet, J., Léonard, R., Vereecken, N. J., Michez, D., Smagghe, G., Baurain, D., & Vandamme, P. (28 June 2022). Phylogenomic Analyses of Snodgrassella Isolates from Honeybees and Bumblebees Reveal Taxonomic and Functional Diversity. mSystems, 7 (3), 0150021. doi:10.1128/msystems.01500-21 |
Corato, A., Le, T. T., Baurain, D., Jacques, P., Remacle, C.* , & Franck, F.*. (23 February 2022). A Fast-Growing Oleaginous Strain of Coelastrella Capable of Astaxanthin and Canthaxanthin Accumulation in Phototrophy and Heterotrophy. Life (Basel, Switzerland), 12 (3), 334. doi:10.3390/life12030334 * These authors have contributed equally to this work. |
Cornet, L., & Baurain, D. (21 February 2022). Contamination detection in genomic data: more is not enough. Genome Biology, 23 (1), 60. doi:10.1186/s13059-022-02619-9 |
Léonard, R., Sauvage, E., Lupo, V., Perrin, A., Sirjacobs, D., Charlier, P., Kerff, F., & Baurain, D. (18 February 2022). Was the last bacterial common ancestor a monoderm after all? Genes, 13. doi:10.3390/genes13020376 |
Lupo, V., Mercuri, P., Frère, J.-M., Joris, B., Galleni, M., Baurain, D.* , & Kerff, F.*. (2022). An Extended Reservoir of Class-D Beta-Lactamases in Non-Clinical Bacterial Strains. Microbiology Spectrum, 10 (2), 0031522. doi:10.1128/spectrum.00315-22 * These authors have contributed equally to this work. |
Cornet, L., D'Hooge, E., Magain, N., Stubbe, D., Packeu, A., Baurain, D.* , & Becker, P.*. (2021). The taxonomy of the Trichophyton rubrum complex: a phylogenomic approach. Microbial Genomics. doi:10.1099/mgen.0.000707 * These authors have contributed equally to this work. |
Bertrand, A., Detry, E., Nouet, C., Hanikenne, M., & Baurain, D. (2021). The rhizosphere microbiota of the zinc and cadmium hyperaccumulators Arabidopsis halleri and Noccaea caerulescens is highly convergent in Prayon (Belgium). ORBi-University of Liège. https://orbi.uliege.be/handle/2268/304726. doi:10.21203/rs.3.rs-968648/v1 |
Sacheli, R., Arendrup Maiken, Chowdhary Anuradha, Coppieters, W., Naomé, A., Baurain, D., Hanikenne, M., & Hayette, M.-P. (October 2021). Development of a bioinformatic tool for the treatment of WGS data for dermatophytes typing and characterization: Focus on squalene epoxidase mutations and terbinafine resistance [Poster presentation]. 10th Trends in Medical Mycology (TIMM), Aberdeen, United Kingdom. |
Léonard, R., Leleu, M., Van Vlierberghe, M., Cornet, L., Kerff, F., & Baurain, D. (05 May 2021). ToRQuEMaDA: tool for retrieving queried Eubacteria, metadata and dereplicating assemblies. PeerJ, 9, 11348. doi:10.7717/peerj.11348 |
Córdoba Jacoste, F. J., Perez, E., Van Vlierberghe, M., Bertrand, A., Lupo, V., Cardol, P., & Baurain, D. (2021). De Novo Transcriptome Meta-Assembly of the Mixotrophic Freshwater Microalga Euglena gracilis. Genes, 12 (6). doi:10.3390/genes12060842 |
Cornet, L., Ahn, A.-C., Wilmotte, A., & Baurain, D. (2021). ORPER: A Workflow for Constrained SSU rRNA Phylogenies. Genes, 12 (11). doi:10.3390/genes12111741 |
Di Franco, A., Baurain, D., Glöckner, G., Melkonian, M., & Philippe, H. (2021). Lower statistical support with larger datasets: insights from the Ochrophyta radiation. Molecular Biology and Evolution. doi:10.1093/molbev/msab300 |
Gain, G.* , Vega de Luna, F.* , Córdoba Jacoste, F. J., Perez, E., Degand, H., Morsomme, P., Thiry, M., Baurain, D., Pierangelini, M., & Cardol, P. (2021). Trophic state alters the mechanism whereby energetic coupling between photosynthesis and respiration occurs in Euglena gracilis. New Phytologist. doi:10.1111/nph.17677 * These authors have contributed equally to this work. |
Lupo, V., Van Vlierberghe, M., Vanderschuren, H., Kerff, F., Baurain, D., & Cornet, L. (2021). Contamination in Reference Sequence Databases: Time for Divide-and-Rule Tactics. Frontiers in Microbiology, 12, 755101. doi:10.3389/fmicb.2021.755101 |
Van Vlierberghe, M., Di Franco, A., Philippe, H., & Baurain, D. (2021). Decontamination, pooling and dereplication of the 678 samples of the Marine Microbial Eukaryote Transcriptome Sequencing Project. BMC Research Notes, 14 (1), 306. doi:10.1186/s13104-021-05717-2 |
Van Vlierberghe, M., Philippe, H., & Baurain, D. (2021). Broadly sampled orthologous groups of eukaryotic proteins for the phylogenetic study of plastid-bearing lineages. BMC Research Notes, 14 (1), 143. doi:10.1186/s13104-021-05553-4 |
Baurain, D. (2020). Modern Perl for Biologists II | Deeper Concepts. (ULiège - Université de Liège, INFO0953-1 Scripting interfaces for biological software and databases). |
Baurain, D. (2020). Modern Perl for Biologists I | The Basics. (ULiège - Université de Liège, INFO0953-1 Scripting interfaces for biological software and databases). |
Baurain, D. (2020). Evolution génétique de l'homme moderne [Paper presentation]. U3A - Section Sciences et Nature, Liège, Belgium. |
Baurain, D. (2020). L'Arbre du Vivant [Paper presentation]. Darwin Day 2020, Liège, Belgium. |
Zanatta, F.* , Engler, R.* , Collart, F.* , Broennimann, O., Mateo, R. G., Papp, B., Muñoz, J., Baurain, D., Guisan, A.* , & Vanderpoorten, A.*. (2020). Bryophytes are predicted to lag behind future climate change despite their high dispersal capacities. Nature Communications, 11, 5601. doi:10.1038/s41467-020-19410-8 * These authors have contributed equally to this work. |
Ahn, A.-C., Cornet, L., Beets, K., Lara, Y., Durieu, B., Javaux, E., Baurain, D., & Wilmotte, A. (18 October 2019). Biodiversity of Cyanobacteria and associated microbiome in the BCCM/ULC Culture Collection [Poster presentation]. 2019 Symposium of the Belgian Society for Microbiology, Bruxelles, Belgium. |
Van Vlierberghe, M., & Baurain, D. (2019). AUTOMATED BIOINFORMATICS TO EVALUATE THE RELATIVE CONTRIBUTION OF ENDOSYMBIOSIS AND KLEPTOPLASTY IN THE EVOLUTION OF COMPLEX RED ALGAE [Paper presentation]. 7th European Phycological Congress (EPC7), Zagreb, Croatia. |
Wilmotte, A., Beets, K., Simons, V., Lara, Y., Durieu, B., Cornet, L., & Baurain, D. (27 August 2019). BCCM/ULC : genomic research on Polar cyanobacteria. European Journal of Phycology, 54 (sup1), 31-117. doi:10.1080/09670262.2019.1626627 |
Ahn, A.-C., Beets, K., Lara, Y., Durieu, B., Simons, V., Cornet, L., Baurain, D., & Wilmotte, A. (13 June 2019). Cyanobacteria of Polar Regions: Focus of the BCCM/ULC Culture Collection [Poster presentation]. ECCO 2019 XXXVIII Annual Meeting of the European Culture Collections' Organisation, Turin, Italy. |
Meunier, L., Jacques, P., & Baurain, D. (14 March 2019). Natural products: what is the biosynthetic potential of unicellular eukaryotes? [Poster presentation]. VIZBI 2019 (Visualising Biological Data), Heidelberg, Germany. |
Demoulin, C.* , Lara, Y.* , Cornet, L., François, C., Baurain, D., Wilmotte, A., & Javaux, E. (2019). Cyanobacteria evolution: Insight from the fossil record. Free Radical Biology and Medicine, 140, 206-223. doi:10.1016/j.freeradbiomed.2019.05.007 * These authors have contributed equally to this work. |
Di Franco, A., Poujol, R., Baurain, D., & Philippe, H. (2019). Evaluating the usefulness of alignment filtering methods to reduce the impact of errors on evolutionary inferences. BMC Evolutionary Biology, 19 (1), 21. doi:10.1186/s12862-019-1350-2 |
Vassaux, A., Meunier, L., Vandenbol, M., Baurain, D., Fickers, P., Jacques, P., & Leclère, V. (2019). Nonribosomal peptides in fungal cell factories: from genome mining to optimized heterologous production. Biotechnology Advances. doi:10.1016/j.biotechadv.2019.107449 |
Wilmotte, A., Santoro, M., Beets, K., Lara, Y., Durieu, B., Simons, V., Silva-Stenico, E., De Fiore, M., Cornet, L., & Baurain, D. (October 2018). Ex-situ conservation and exploration of polar cyanobacteria in the BCCM/ULC Collection [Poster presentation]. BSM 2018 Annual Symposium "Microbes in the spotlight", Brussels, Belgium. |
Wilmotte, A., Beets, K., Simons, V., Lara, Y., Durieu, B., Cornet, L., Baurain, D., & Laughinghouse IV, H. (June 2018). Ex-situ Conservation of Polar Cyanobacteria in the BCCM/ULC Collection [Poster presentation]. POLAR 2018 'Where the Poles come together', Davos, Switzerland. |
Naomé, A., Maciejewska, M., Calusinska, M., Martinet, L., Anderssen, S., Adam, D., Tenconi, E., Deflandre, B., Coppieters, W., Karim, L., Hanikenne, M., Baurain, D., Delfosse, P., van Wezel, G., & Rigali, S. (May 2018). Complete Genome Sequence of Streptomyces lunaelactis MM109T, Isolated from Cave Moonmilk Deposits. Genome Announcements, 6 (21), 00435-18. doi:10.1128/genomeA.00435-18 |
Lara, Y., Beets, K., Simons, V., Durieu, B., Cornet, L., Santoro, M., Laughinghouse IV, H., Javaux, E., Baurain, D., & Wilmotte, A. (March 2018). Polar cyanobacteria in the BCCM/ULC collection : diversity and characterization [Poster presentation]. COST Life Origin Final Workshop, Bertinoro, Italy. |
Lara, Y., Durieu, B., Pessi, I., Cornet, L., Baurain, D., Javaux, E., & Wilmotte, A. (March 2018). The survival toolkit of the Antarctic cyanobacterium Phormidesmis priestleyi ULC007 [Paper presentation]. COST Life Origin Final Workshop, Bertinoro, Italy. |
Adam, D., Maciejewska, M., Naomé, A., Martinet, L., Coppieters, W., Karim, L., Baurain, D., & Rigali, S. (2018). Isolation, Characterization, and Antibacterial Activity of Hard-to-Culture Actinobacteria from Cave Moonmilk Deposits. Antibiotics, 7(2) (28), 10.3390/antibiotics7020028. doi:10.3390/antibiotics7020028 |
Cornet, L., Bertrand, A., Hanikenne, M., Javaux, E., Wilmotte, A., & Baurain, D. (2018). Metagenomic assembly of new (sub)polar Cyanobacteria and their associated microbiome from non-axenic cultures. Microbial Genomics, 4. doi:10.1099/mgen.0.000212 |
Cornet, L., Meunier, L., Van Vlierberghe, M., Léonard, R., Durieu, B., Lara, Y., Misztak, A., Sirjacobs, D., Javaux, E., Philippe, H., Wilmotte, A., & Baurain, D. (2018). Consensus assessment of the contamination level of publicly available cyanobacterial genomes. PLoS ONE, 13 (7), 0200323. doi:10.1371/journal.pone.0200323 |
Cornet, L., Wilmotte, A., Javaux, E., & Baurain, D. (2018). A constrained SSU-rRNA phylogeny reveals the unsequenced diversity of photosynthetic Cyanobacteria (Oxyphotobacteria). BMC Research Notes, 11 (1), 435. doi:10.1186/s13104-018-3543-y |
Maciejewska, M., Całusińska, M., Cornet, L., Adam, D., Pessi, I. S., Malchair, S., Delfosse, P., Baurain, D., Barton, H., Carnol, M., & Rigali, S. (2018). High-throughput Sequencing Analysis of the Actinobacterial Spatial Diversity in Moonmilk Deposits. Antibiotics, 7(2) (28). doi:10.3390/antibiotics7020027 |
Léonard, R., Sirjacobs, D., Sauvage, E., Kerff, F., & Baurain, D. (11 May 2017). ToRQuEMaDA: Tool for retrieving queried eubacteria, metadata and dereplicating assemblie [Poster presentation]. PhD Student Day 2017, Liège, Belgium. |
Lara, Y., Durieu, B., Cornet, L., Verlaine, O., Rippka, R., Stelmach Pessi, I., Misztak, A., Joris, B., Javaux, E., Baurain, D., & Wilmotte, A. (2017). Draft genome sequence of the axenic strain Phormidesmis priestleyi ULC007, a cyanobacterium isolated from Lake Bruehwiler (Larsemann Hills, Antarctica). Genome Announcements, 01546-16. doi:10.1128/genomeA.01546-16 |
Crasson, O., Courtade, G., Léonard, R., Aachmann, F., Legrand, F., Parente, R., Baurain, D., Galleni, M., Sorlie, M., & Vandevenne, M. (2017). Human chitotriosidase: Catalytic domain or carbohydrate binding module, who's leading HCHT's biological function. Scientific Reports, 7 (1). doi:10.1038/s41598-017-02382-z |
Maciejewska, M., Adam, D., Naomé, A., Martinet, L., Tenconi, E., Calusinska, M., Delfosse, P., Hanikenne, M., Baurain, D., Compère, P., Carnol, M., Barton, H., & Rigali, S. (2017). Assessment of the Potential Role of Streptomyces in Cave Moonmilk Formation. Frontiers in Microbiology, 8. doi:10.3389/fmicb.2017.01181 |
Philippe, H., Vienne, D. M. D., Ranwez, V., Roure, B., Baurain, D., & Delsuc, F. (2017). Pitfalls in supermatrix phylogenomics. European Journal of Taxonomy, 283, 1-25. doi:10.5852/ejt.2017.283 |
Rodriguez, A., Burgon, J. D., Lyra, M., Irisarri, I., Baurain, D., Blaustein, L., Gocmen, B., Kunzel, S., Mable, B. K., Nolte, A. W., Veith, M., Steinfartz, S., Elmer, K. R., Philippe, H., & Vences, M. (2017). Inferring the shallow phylogeny of true salamanders (Salamandra) by multiple phylogenomic approaches. Molecular Phylogenetics and Evolution, 115, 16-26. doi:10.1016/j.ympev.2017.07.009 |
Tocquin, P., Naomé, A., Jourdan, S., Anderssen, S., Hiard, S., van Wezel, G., Hanikenne, M., Baurain, D., & Rigali, S. (2016). PREDetector 2.0: Online and Enhanced Version of the Prokaryotic Regulatory Elements Detector Tool. ORBi-University of Liège. https://orbi.uliege.be/handle/2268/203998. doi:10.1101/084780 |
Maciejewska, M.* , Adam, D.* , Martinet, L., Naomé, A., Całusińska, M., Delfosse, P., Carnol, M., Barton, H., HAYETTE, M.-P., Smargiasso, N., De Pauw, E., Hanikenne, M., Baurain, D., & Rigali, S. (2016). A Phenotypic and Genotypic Analysis of the Antimicrobial Potential of Cultivable Streptomyces Isolated from Cave Moonmilk Deposits. Frontiers in Microbiology. doi:10.3389/fmicb.2016.01455 * These authors have contributed equally to this work. |
Baurain, D., Van Vlierberghe, M., Arnaud, D. F., & Philipe, H. (05 September 2016). Automated tools for the generation and interpretation of single gene trees at a broad taxonomic scale [Poster presentation]. ECCB 2016. |
Baurain, D. (22 April 2016). HTC Bayesian Phylogenomics on the Zenobe Tier-1 supercomputer [Paper presentation]. CÉCI Scientific Day, Liège, Belgium. |
Baurain, D., Wilmotte, A., & Frère, J.-M. (2016). Gram-Negative Bacteria: "Inner" vs. "Cytoplasmic" or "Plasma Membrane": A Question of Clarity rather than Vocabulary. Journal of Microbial and Biochemical Technology, 8 (4), 325-326. doi:10.4172/1948-5948.1000305 |
Kadri, N. K., Harland, C., Faux, P., Cambisano, N., Karim, L., Coppieters, W., Fritz, S., Mullaart, E., Baurain, D., Boichard, D., Spelman, R., Charlier, C., Georges, M., & Druet, T. (2016). Coding and noncoding variants in HFM1, MLH3, MSH4, MSH5, RNF212, and RNF212B affect recombination rate in cattle. Genome Research, 26 (10), 1323-1332. doi:10.1101/gr.204214.116 |
Mouton, A., Espelta, J. M., Baurain, D., & Michaux, J. (2016). Using Next Generation Sequencing to characterize species diets: a study case with faeces of wild boar in the Spanish Pyrenees [Poster presentation]. Congenomics conference, Porto, Portugal. |
Léonard, R., Baurain, D., Kerff, F., Sauvage, E., & Sirjacobs, D. (07 December 2015). On the LZ distance for dereplicating redundant prokaryotic genomes [Poster presentation]. 10th Benelux Bioinformatics Conference, Antwerp, Belgium. |
Lara, Y., Verlaine, O., Kleinteich, J., Stelmach Pessi, I., Rippka, R., Renard, M., Cornet, L., Baurain, D., & Wilmotte, A. (03 August 2015). Genome sequencing of an endemic filamentous Antarctic cyanobacterium [Poster presentation]. 15th International Symposium on Phototrophic Prokaryotes, Tubingen, Germany. |
Wilmotte, A., Renard, M., Lara, Y., Cornet, L., Baurain, D., Waleron, M., & Waleron, K. (03 August 2015). The BCCM/ULC collection : a Biological Ressource Center for polar cyanobacteria [Poster presentation]. 15th International Symposium on Phototrophic Prokaryotes, Tubingen, Germany. |
Baurain, D. (17 April 2015). Pinpointing the origin of plastids using phylogenomics [Paper presentation]. Invited Seminar at the University of Lille, Lille, France. |
Gouy, R., Baurain, D., & Philippe, H. (2015). Rooting the tree of life: the phylogenetic jury is still out. Philosophical Transactions. Biological Sciences, 370 (1678), 20140329. doi:10.1098/rstb.2014.0329 |
Cornet, L., Javaux, E., Wilmotte, A., Hervé, P., & Baurain, D. (03 November 2014). A Phylogenomic analysis of the origin of plastids [Paper presentation]. IUAP Planet TOPERS meeting, Liège, Belgium. |
Perez, E., Lapaille, M., Degand, H., Cilibrasi, L., Villavicencio-Queijeiro, A., Morsomme, P., Gonzalez-Halphen, D., Field, M. C., Remacle, C., Baurain, D., & Cardol, P. (November 2014). The mitochondrial respiratory chain of the secondary green alga Euglena gracilis shares many additional subunits with parasitic Trypanosomatidae. Mitochondrion, 19 Pt B, 338-349. doi:10.1016/j.mito.2014.02.001 |
Baurain, D. (23 October 2014). Evolution des eucaryotes : l'éclairage de la phylogénie moléculaire [Paper presentation]. Cours-conférence du Collège Belgique : Origine et évolution des eucaryotes, Bruxelles, Belgium. |
Perez, E., Lapaille, M., Degand, H., Cilibrasi, L., Gilsoul, M., Morsomme, P., Field, M. C., Remacle, C., Cardol, P., & Baurain, D. (August 2014). Transcriptomics and Proteomics of a Secondary Green Alga [Poster presentation]. Protist 2014, Banff, Alberta, Canada. |
Perez, E., Degand, H., Morsomme, P., Remacle, C., Cardol, P., & Baurain, D. (06 May 2014). Mitochondrial Proteomics of a Secondary Green Alga [Poster presentation]. PhytoSystems Day. |
Baurain, D. (2014). Denis BAURAIN – Portfolio pédagogique. (ULiège - Université de Liège). |
Petersen, J., Ludewig, A.-K., Michael, V., Bunk, B., Jarek, M., Baurain, D., & Brinkmann, H. (February 2014). Chromera velia, Endosymbioses and the Rhodoplex Hypothesis - Plastid Evolution in Cryptophytes, Alveolates, Stramenopiles and Haptophytes (CASH Lineages). Genome Biology and Evolution, 6 (3), 666-684. doi:10.1093/gbe/evu043 |
Hanikenne, M., & Baurain, D. (07 January 2014). Origin and evolution of metal P-type ATPases in Plantae (Archaeplastida). Frontiers in Plant Science, 4, 544. doi:10.3389/fpls.2013.00544 |
Baurain, D. (18 April 2013). Computers As Genomic Time Machines for Meeting our Ancestors [Paper presentation]. Bioforum 2013, Liège, Belgium. |
Demoulin, V., Cornet, L., Delbruyère, E., & Baurain, D. (2013). The unusual Gasteromycetes Lycogalopsis solmsii belongs to the gomphoid-phalloid group. Acta Mycologica, 48 (1), 13-20. doi:10.5586/am.2013.002 |
Baurain, D. (20 September 2012). L'évolution des Eucaryotes [Paper presentation]. Miniconférence de la Société Royale des Sciences de Liège, Liège, Belgium. |
Baurain, D. (19 June 2012). Evolutionary analysis of a complex multigene family by semi-automated mining of public sequence databases [Paper presentation]. Systems Biology Workshop of the Greater Region University, Lultzhausen, Luxembourg. |
Perez, E., Degand, H., Morsomme, P., Remacle, C., Cardol, P., & Baurain, D. (June 2012). Mitochondrial Proteomics of a Secondary Green Alga [Poster presentation]. Systems Biology Workshop of the Greater Region University, Lultzhausen, Luxembourg. |
Califice, S.* , Baurain, D.* , Hanikenne, M., & Motte, P. (February 2012). A Single Ancient Origin for Prototypical Serine/Arginine-Rich Splicing Factors1[W][OA]. Plant Physiology, 158 (2), 546-560. doi:10.1104/pp.111.189019 * These authors have contributed equally to this work. |
Philippe, H., Brinkmann, H., Lavrov, D. V., Littlewood, D. T. J., Manuel, M., Wörheide, G., & Baurain, D. (2011). Resolving difficult phylogenetic questions: why more sequences are not enough. PLoS Biology, 9 (3), 1000602. doi:10.1371/journal.pbio.1000602 |
Baurain, D., Brinkmann, H., Petersen, J., Rodriguez-Ezpeleta, N., Stechmann, A., Demoulin, V., Roger, A. J., Burger, G., Lang, B. F., & Philippe, H. (July 2010). A phylogenomic falsification of the chromalveolate hypothesis [Poster presentation]. Annual Meeting of the Society for Molecular and Biology and Evolution - SMBE 2010, Lyon, France. |
Baurain, D. (20 April 2010). On the origin of chlorophyll c-containing algae: A phylogenomic falsification of the chromalveolate hypothesis [Paper presentation]. Biowissenschaftliches Zentrum Invited Seminar, Cologne, Germany. |
Lapaille, M., Escobar-Ramírez, A., Degand, H., Baurain, D., Thiry, M., Perez, E., Boutry, M., Gonzalez-Halpen, D., Remacle, C., & Cardol, P. (2010). F1FO ATP synthase mutants in Chlamydomonas: Stability and oligomycin resistance mediated by atypical Asa7 protein; interaction between chloroplastic and mitochondrial bioenergetics. Biochimica et Biophysica Acta. Bioenergetics, 1797 (Supplement 1), 29. doi:10.1016/j.bbabio.2010.04.104 |
Lapaille, M., Escobar-Ramirez, A., Degand, H., Baurain, D., Thiry, M., Perez, E., Boutry, M., Gonzalez-Halphen, D., Remacle, C., & Cardol, P. (2010). F1FO ATP synthase mutants in Chlamydomonas: Stability and oligomycin resistance mediated by atypical Asa7 protein; interaction between chloroplastic and mitochondrial bioenergetics [Poster presentation]. 16th European Bioenergetics Conference, Warsaw, Poland. |
Fourré, F., & Baurain, D. (2009). A reduction method for noisy Boolean networks. ORBi-University of Liège. https://orbi.uliege.be/handle/2268/80182. |
Hiard, S., Charlier, C., Coppieters, W., Georges, M., & Baurain, D. (December 2009). Patrocles: a database of polymorphic miRNA-mediated gene regulation in vertebrates [Poster presentation]. BBC09, the fifth Benelux Bioinformatics Conference, Liège, Belgium. |
Baurain, D., Hiard, S., Coppieters, W., Charlier, C., & Georges, M. (29 September 2009). Patrocles: a database of polymorphic miR-mediated gene regulation in vertebrates [Paper presentation]. La face cachée des microRNA, Liège, Belgium. |
Hiard, S., Baurain, D., Coppieters, W., Tordoir, X., Charlier, C., & Georges, M. (July 2008). Patrocles: a database of polymorphic miRNA-mediated gene regulation [Poster presentation]. XX International Congress of Genetics, Berlin, Germany. |
Hiard, S., Baurain, D., Coppieters, W., Tordoir, X., Charlier, C., & Georges, M. (03 March 2008). Patrocles: a database of polymorphic miRNA-mediated gene regulation [Paper presentation]. EADGENE miRNAs workshop and miRNAs in Health and Disease 2 / Satellite Course "A primer in miRNA biology", Liège, Belgium. |
Teich, R., Zauner, S., Baurain, D., Brinkmann, H., & Petersen, J. (July 2007). Origin and distribution of Calvin cycle fructose and sedoheptulose bisphosphatases in Plantae and complex algae: A single secondary origin of complex red plastids and subsequent propagation via tertiary endosymbioses. Protist, 158 (3), 263-276. doi:10.1016/j.protis.2006.12.004 |
Baurain, D., Brinkmann, H., & Philippe, H. (22 December 2006). Phylogénomique des lignées photosynthétiques [Paper presentation]. Inauguration de l'EDT Plant Science, Louvain-la-neuve, Belgium. |
Philippe, H., Brinkmann, H., & Baurain, D. (March 2006). Animal evolution — A fully-resolved phylogenomic tree argues against the Cambrian explosion hypothesis [Poster presentation]. First Phylogenomics Conference, Saint-Adèle, Québec, Canada. |
Philippe, H., Brinkmann, H., & Baurain, D. (20 February 2006). The animal phylogeny and the fundamental importance of taxon sampling [Paper presentation]. UdeM Centre Robert Cedergren Monday Seminar, Montréal, Québec, Canada. |
Baurain, D., Beiko, R. G., & Ragan, M. A. (04 November 2005). Assessing the effects of compositional heterogeneity on phylogenomic analyses [Paper presentation]. 2nd annual Robert Cedergren Bioinformatics Colloquium, Montréal, Québec, Canada. |
Bacha, S., & Baurain, D. (26 August 2005). Application of the Lempel-Ziv complexity to the alignment-free sequence comparison of protein families [Paper presentation]. Genomics and Computational Biology Group Meeting, Institute for Molecular Bioscience (IMB), Brisbane, Queensland, Australia. |
Baurain, D. (2005). Le darwinisme peut-il tout expliquer ? [Paper presentation]. Réunion mensuelle Mensa BE (Liège), Liège, Belgium. |
Bacha, S., & Baurain, D. (April 2005). Application of Lempel-Ziv complexity to alignment-free sequence comparison of protein families [Poster presentation]. Benelux Bioinformatics Conference 2005, Ghent, Belgium. |
Baurain, D., & Demoulin, V. (03 February 2005). Why does the red algal plastid lineage lack plastocyanin? [Paper presentation]. International Society for Evolutionary Protistology (ISEP) Conference XV, Melbourne, Victoria, Australia. |
Cardol, P., Gonzalez-Halphen, D., Reyes-Prieto, A., Baurain, D., Matagne, R.-F., & Remacle, C. (February 2005). The mitochondrial oxidative phosphorylation proteome of Chlamydomonas reinhardtii deduced from the genome sequencing project [letter to the editor]. Plant Physiology, 137 (2), 447-459. doi:10.1104/pp.104.054148 |
Hanikenne, M., Krämer, U., Demoulin, V., & Baurain, D. (2005). A comparative inventory of metal transporters in the green alga Chlamydomonas reinhardtii and the red alga Cyanidioschizon merolae. Plant Physiology, 137 (2), 428-446. doi:10.1104/pp.104.054189 |
Fourré, F., Baurain, D., & Barbason, H. (December 2004). From protein interaction to cell population dynamics: A theoretical framework combining Boolean networks with Markov processes illustrated in an ovarian carcinoma [Poster presentation]. Bioforum 2004, Liège, Belgium. |
Baurain, D., Dinant, M., Coosemans, N., & Matagne, R.-F. (March 2003). Regulation of the alternative oxidase Aox1 gene in Chlamydomonas reinhardtii. Role of the nitrogen source on the expression of a reporter gene under the control of the Aox1 promoter. Plant Physiology, 131 (3), 1418-1430. doi:10.1104/pp.013409 |
Baurain, D. (2003). Clonage, caractérisation et étude de la régulation transcriptionnelle du gène Aox1 encodant l'oxydase alternative chez Chlamydomonas reinhardtii [Doctoral thesis, ULiège - Université de Liège]. ORBi-University of Liège. https://orbi.uliege.be/handle/2268/71086 |
Baurain, D., Renquin, L., Grubisic, S., Scheldeman, P., Belay, A., & Wilmotte, A. (April 2002). Remarkable conservation of internally transcribed spacer sequences of Arthrospira ("Spirulina") (Cyanophyceae, Cyanobacteria) strains from four continents and of recent and 30-year-old dried samples from Africa. Journal of Phycology, 38 (2), 384-393. doi:10.1046/j.1529-8817.2002.01010.x |
Matagne, R.-F., & Baurain, D. (September 2001). A mutation in the GTPase domain of the large subunit rRNA is involved in the suppression of a -1T frameshift mutation affecting a mitochondrial gene in Chlamydomonas reinhardtii. Molecular Genetics and Genomics, 266 (1), 103-108. doi:10.1007/s004380100526 |
Dinant, M.* , Baurain, D.* , Coosemans, N., Joris, B., & Matagne, R.-F. (April 2001). Characterization of two genes encoding the mitochondrial alternative oxidase in Chlamydomonas reinhardtii. Current Genetics, 39 (2), 101-108. doi:10.1007/s002940000183 * These authors have contributed equally to this work. |
Scheldeman, P., Baurain, D., Bouhy, R., Muhling, M., Whitton, B. A., Belay, A., & Wilmotte, A. (15 March 1999). Arthrospira ('Spirulina') strains from four continents are resolved into only two clusters, based on amplified ribosomal DNA restriction analysis of the internally transcribed spacer. FEMS Microbiology Letters, 172 (2), 213-22. doi:10.1016/S0378-1097(99)00017-8 |
Baurain, D. (February 1992). VGA-MAC : Visualiser des images de MAC en VGA. PC Micro-Informatique, 59, p. 31-5. |