Profil

Baurain Denis

Département des sciences de la vie > Phylogénomique des eucaryotes

InBioS

See author's contact details
ORCID
0000-0003-2388-6185
Main Referenced Co-authors
Cornet, Luc  (40)
Wilmotte, Annick  (39)
Lara, Yannick  (22)
Durieu, Benoit  (19)
Van Vlierberghe, Mick  (18)
Main Referenced Keywords
cyanobacteria (17); Cyanobacteria (11); phylogenomics (9); Archaeplastida (7); Chlamydia (7);
Main Referenced Unit & Research Centers
CIP - Centre d'Ingénierie des Protéines - ULiège [BE] (16)
InBios - Integrative Biological Sciences - ULiège [BE] (7)
Biological Sciences from Molecules to Systems - inBioS (3)
GIGA‐R - Giga‐Research - ULiège [BE] (2)
Astrobiology - ULiège [BE] (1)
Main Referenced Disciplines
Genetics & genetic processes (93)
Biochemistry, biophysics & molecular biology (89)
Microbiology (79)
Phytobiology (plant sciences, forestry, mycology...) (38)
Environmental sciences & ecology (21)

Publications (total 182)

The most downloaded
1611 downloads
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 https://hdl.handle.net/2268/20439

The most cited

793 citations (OpenCitations)

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 https://hdl.handle.net/2268/92738

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
Peer Reviewed verified by ORBi

Mittelheiser, L., Baurain, D., & Frederich, B. (22 November 2023). Diversity, distribution and evolution of colour patterns in three reef fish families [Paper presentation]. Indo-Pacific Fish Conference.

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
Peer Reviewed verified by ORBi

Mittelheiser, L., Baurain, D., & Frederich, B. (30 May 2023). Comparative study of the color pattern evolution in three reef fish families [Poster presentation]. Zoology 2023, Leiden, Netherlands.

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
Peer Reviewed verified by ORBi

Cornet, L., Frederik Baert, Elizabet D'hooge, David Colignon, Loic Meunier, Benoit Durieu, Ilse Cleenwerck, Heide-Marie Daniel, Leen Rigouts, Stéphane Declerck, Peter Vandamme, Wilmotte, A., Lupo, V., Baurain, D., & Pierre Becker. (2023). The GEN-ERA toolbox: unified and reproducible workflows for research in microbial genomics [Paper presentation]. ICCC15.
Editorial reviewed

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
Peer Reviewed verified by ORBi

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.

Mittelheiser, L., Baurain, D., & Frederich, B. (22 September 2022). Diversity and evolution of color patterns in the goatfishes (Syngnathiformes, Mullidae) [Paper presentation]. Zoology 2022.
Editorial reviewed

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
Peer Reviewed verified by ORBi

Mittelheiser, L., Baurain, D., & Frederich, B. (15 March 2022). Patrons de coloration chez les rougets (Mullidae) : une diversification aléatoire ? [Paper presentation]. 8ème Rencontres de l'Ichtyologie en France.
Editorial reviewed

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
Peer reviewed
* 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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi
* 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
Peer Reviewed verified by ORBi
* 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.
Peer reviewed

Leleu, M., Van Vlierberghe, M., Ball, S., Cenci, U., & Baurain, D. (28 May 2021). Chlamydiales implication in the evolution of Archaeplastida: Testing the Ménage à Trois Hypothesis [Paper presentation]. Séminaire hebdomadaire de l'UGSF.

Sévéno, J., Sirjacobs, D., Witkowski, A., Gastineau, Baurain, D., Lejeune, P., Gobert, S., Badawi, M., Leignel, V., & Mouget, J.-L. (14 May 2021). Comparison of epiphytic diatom communities on turf and Padina sp. during blue Haslea blooms in the Ligurian Sea and the Adriatic Sea [Paper presentation]. 7th Conference of the International Society for Applied Phycology, virtual platform, Japan.

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
Peer Reviewed verified by ORBi

Cornet, L., Magain, N., Baurain, D., & Lutzoni, F. (2021). Exploring syntenic conservation across genomes for phylogenetic studies of organisms subjected to horizontal gene transfers: a case study with Cyanobacteria and cyanolichens. Molecular Phylogenetics and Evolution. doi:10.1016/j.ympev.2021.107100
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi
* These authors have contributed equally to this work.

Leleu, M., Van Vlierberghe, M., Cenci, U., Ball, S., & Baurain, D. (27 November 2020). Chlamydiales implication in the evolution of Archaeplastida: Testing the Ménage à Trois Hypothesis [Paper presentation]. Journée André Verbert.

Baurain, D. (2020). Modern Perl for Biologists II | Deeper Concepts. (ULiège - Université de Liège, INFO0953-1 Scripting interfaces for biological software and databases).

Leleu, M., Van Vlierberghe, M., Cenci, U., Ball, S., & Baurain, D. (14 October 2020). Chlamydiales implication in the evolution of Archaeplastida: Testing the Ménage à Trois Hypothesis [Paper presentation]. ByteMAL 2020.

Leleu, M., Van Vlierberghe, M., Cenci, U., Ball, S., & Baurain, D. (14 October 2020). Chlamydiales implication in the evolution of Archaeplastida [Poster presentation]. ByteMAL 2020.

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. (06 March 2020). Making a living out of publicly available genomic data: a juicy but risky business [Paper presentation]. Molecular Bacteriology, Liège, Belgium.

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.

Leleu, M., Van Vlierberghe, M., Cenci, U., Ball, S., & Baurain, D. (07 February 2020). Chlamydiales implication in the evolution of Archaeplastida [Paper presentation]. InBioS day.

Meunier, L., Tocquin, P., Cornet, L., Sirjacobs, D., Leclère, V., Pupin, M., Jacques, P., & Baurain, D. (2020). Palantir: a springboard for the analysis of secondary metabolite gene clusters in large-scale genome mining projects. Bioinformatics, 36 (15), 4345-4347. doi:10.1093/bioinformatics/btaa517
Peer reviewed

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
Peer Reviewed verified by ORBi
* These authors have contributed equally to this work.

Leleu, M., Van Vlierberghe, M., Cenci, U., Ball, S., & Baurain, D. (28 November 2019). Chlamydiales implication in the evolution of Archaeplastida [Poster presentation]. Advances in Computational Biology, Barcelone, Spain.

Bertrand, A., Detry, E., Nouet, C., Hanikenne, M., & Baurain, D. (28 November 2019). Impact of the sequencing coverage in metagenetic and metagenomic studies [Poster presentation]. Advances in Computational Biology 2019 Conference.

Tamisier, L., Colson, C., Maclot, F., Zhang, P., Wang, X., Francis, F., Baurain, D., & Massart, S. (29 October 2019). Experimental evolution of Barley yellow dwarf virus in cultivated and wild Poaceae species [Poster presentation]. International Advances in Plant Virology 2019.

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.
Peer reviewed

Leleu, M., Van Vlierberghe, M., Cenci, U., Ball, S., & Baurain, D. (04 September 2019). Chlamydiales implication in the evolution of Archaeplastida [Poster presentation]. XIV ème ICES, Lille, France.

Van Vlierberghe, M., & Baurain, D. (02 September 2019). Endosymbiosis and kleptoplastidy in the evolution of complex algae [Paper presentation]. ICES 2019 - 14th International Colloquium in Endocytobiology and Symbiosis, Lille, France.

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

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.

Sévéno, J., Sirjacobs, D., Lejeune, P., Baurain, D., Gobert, S., Badawi, M., Leignel, V., & Mouget, J.-L. (August 2019). Blue Haslea blooms in natural environment First investigations in Revellata bay, Corsica, France [Poster presentation]. EPC7 - 7th European Phycological Congress, Zagreb, Croatia.

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.

Tamisier, L., Colson, C., Maclot, F., Zhang, P., Francis, F., Baurain, D., & Massart, S. (28 January 2019). Experimental evolution of Barley yellow dwarf virus in cultivated and wild Poaceae species [Paper presentation]. 17emes Rencontres de Virologie Végétale, Aussois, France.

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
Peer Reviewed verified by ORBi
* These authors have contributed equally to this work.

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

Wilmotte, A., Beets, K., Santoro, M., Simons, V., Lara, Y., Durieu, B., Javaux, E., Jacques, P., Cornet, L., & Baurain, D. (18 December 2018). BCCM/ULC: a collection of cyanobacteria linking Poles to Space [Paper presentation]. The FRS-FNRS Contact Group “Astrobiology: from stars and planets to extreme life”, in collaboration with the EOS ET-HOME project, Liège, Belgium.

Bertrand, A., Detry, E., Nouet, C., Baurain, D., & Hanikenne, M. (08 November 2018). Microbial diversity in the rhizosphere of plant metal hyperaccumulators [Paper presentation]. Journées thématiques de l'AFEM (Association Francophone d'Ecologie Microbienne).

Santoro, M., Beets, K., Simons, V., Lara, Y., Durieu, B., Javaux, E., Jacques, P., Cornet, L., Baurain, D., & Wilmotte, A. (11 October 2018). The BCCM/ULC collection of cyanobacteria in the spotlight at ULiège [Poster presentation]. Journée conjointe du Centre Inter Universitaire de Biologie Marine (CIBIM), de l’Ecole doctorale Biodiversité, Ecologie, Evolution auprès du FNRS et des collèges doctoraux d’Océanologie et de Biologie des organismes et Ecologie, Liège, Belgium.

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.

Durieu, B., Lara, Y., Stelmach Pessi, I., Lambion, A., Verleyen, E., Baurain, D., & Wilmotte, A. (19 June 2018). Biogeography of Cyanobacteria in Antarctic Mats and Implication for Conservation [Paper presentation]. Polar 2018, Where the Poles come together, Open Science Conference, Davos, Switzerland.

Durieu, B., Baurain, D., Wilmotte, A., & Lara, Y. (19 June 2018). Cold Adaptation Strategy of the Antarctic Cyanobacterium P. priestleyi ULC007 [Poster presentation]. Polar 2018, Where the Poles come together, Open Science Conference, Davos, Switzerland.

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
Peer reviewed

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.
Peer reviewed

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.
Peer reviewed

Córdoba Jacoste, F. J., Perez, E., Van Vlierberghe, M., Baurain, D., & Cardol, P. (March 2018). Generation of a comprehensive transcriptomic and proteomic resource for the photosynthetic eukaryote Euglena gracilis [Paper presentation]. Applied Bioinformatics in Life Sciences (2nd edition).

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
Peer Reviewed verified by ORBi

Córdoba Jacoste, F. J., Perez, E., Van Vlierberghe, M., Baurain, D., & Cardol, P. (2018). Generation of a comprehensive transcriptomic and proteomic resource for the photosynthetic eukaryote Euglena gracilis [Poster presentation]. Sfphi2018: Journées de la Société Française de Photosynthèse.

Córdoba Jacoste, F. J., Perez, E., Baurain, D., & Cardol, P. (2018). Generation of a transcriptomic and proteomic resource for the photosynthetic eukaryote Euglena gracilis [Poster presentation]. European Congress on Photosyntesis Research.

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

Joris, M., Schloesser, M., Baurain, D., Hanikenne, M., Muller, M., & Motte, P. (21 July 2017). Number of inadvertent RNA targets for morpholino knockdown in Danio rerio is largely underestimated: evidence from the study of Ser/Arg-rich splicing factors. Nucleic Acids Research, 45 (16), 9547-9557. doi:10.1093/nar/gkx638
Peer Reviewed verified by ORBi

Lara, Y., Durieu, B., Renard, M., Beets, K., Stelmach Pessi, I., Cornet, L., Simons, V., Baurain, D., Javaux, E., Jacques, P., & Wilmotte, A. (2017). The BCCM/ULC collection to conserve the biodiversity and study the secondary metabolites of Antarctic cyanobacteria. In A. Van de Putte (Ed.), Book of abstracts: XIIth SCAR Biology Symposium, Leuven, Belgium, 10-14 July 2017 (pp. 244). SCAR.
Peer reviewed

Martinet, L., Maciejewska, M., Adam, D., Naomé, A., Carnol, M., Barton, H., Smargiasso, N., De Pauw, E., Hanikenne, M., Baurain, D., & Rigali, S. (24 May 2017). Streptomyces from Moonmilk, an Untapped Source of New Bioactive Compounds [Poster presentation]. International symposium on the biology of Actinomycetes, Jeju, South Korea.

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
Peer reviewed

Simion, P., Philippe, H., Baurain, D., Jager, M., Richter, D. J., Di Franco, A., Roure, B., Satoh, N., Queinnec, E., Ereskovsky, A., Lapebie, P., Corre, E., Delsuc, F., King, N., Worheide, G., & Manuel, M. (2017). A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals. Current Biology. doi:10.1016/j.cub.2017.02.031
Peer Reviewed verified by ORBi

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
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Córdoba Jacoste, F. J., Perez, E., Baurain, D., & Cardol, P. (2017). Analysis of Euglena gracilis proteome under mixotrophic conditions [Paper presentation]. Proteomic Bioinformatics, Cambridge, United Kingdom.

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
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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
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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
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Córdoba Jacoste, F. J., Perez, E., Baurain, D., & Cardol, P. (2017). Analysisi of Euglena gracilis proteome under mixotrophic conditions [Paper presentation]. Current trends in membrane protein biophysics.

Mauroy, A., Taminiau, B., Nezer, C., Ghurburrun, E., Baurain, D., Daube, G., & Thiry, E. (2017). High-throughput sequencing analysis reveals the genetic diversity of different regions of the murine norovirus genome during in vitro replication. Archives of Virology, 16 (4), 1019-1023. doi:10.1007/s00705-016-3179-y
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Irisarri, I., Baurain, D., Brinkmann, H., Delsuc, F., Sire, J.-Y., Kupfer, A., Petersen, J., Jarek, M., Meyer, A., Vences, M., & Philippe, H. (2017). Phylotranscriptomic consolidation of the jawed vertebrate timetree. Nature Ecology and Evolution, 1 (9), 1370-1378. doi:10.1038/s41559-017-0240-5
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Lara, Y., Durieu, B., Renard, M., Stelmach Pessi, I., Cornet, L., Simons, V., Baurain, D., Javaux, E., Jacques, P., & Wilmotte, A. (16 November 2016). The BCCM/ULC collection to conserve the biodiversity and study the secondary metabolites of Polar cyanobacteria [Poster presentation]. BIOFORUM 2016, Liège, Belgium.

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

Becker, P., SZTERNFELD, P., ANDJELKOVIC, M., ANTHONISSEN, R., VERSCHAEVE, L., HENDRICKX, M., Renard, M., Lara, Y., Durieu, B., Simons, V., Laughinghouse, H. D., Cornet, L., Baurain, D., & Wilmotte, A. (28 October 2016). The BCCM/ULC collection to conserve the biodiversity and explore the applied potential of Polar cyanobacteria [Poster presentation]. Symposium “Microbiome and Host Metabolism", Brussels, Belgium.

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
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* 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.

Wilmotte, A., Renard, M., Lara, Y., Durieu, B., Stelmach Pessi, I., Simons, V., Laughinghouse, H. D., Cornet, L., & Baurain, D. (September 2016). The BCCM/ULC collection to conserve and study the biodiversity of Polar cyanobacteria [Poster presentation]. 2Oth IAC Cyanophyte/Cyanobacteria Symposium, Innsbruck, Austria.

Wilmotte, A., Renard, M., Lara, Y., Cornet, L., Baurain, D., Waleron, M., & Waleron, K. (August 2016). The BCCM/ULC collection: a Biological Ressource Center to give access to the Antarctic cyanobacterial diversity [Poster presentation]. XXXIV SCAR Biennial Meetings and Open Science Conference 2016, Kuala Lumpur, Malaysia.

Baurain, D. (22 April 2016). HTC Bayesian Phylogenomics on the Zenobe Tier-1 supercomputer [Paper presentation]. CÉCI Scientific Day, Liège, Belgium.

Stelmach Pessi, I., De Carvalho Maalouf, P., Laughinghouse, H. D., Baurain, D., & Wilmotte, A. (2016). ON THE USE OF HIGH-THROUGHPUT SEQUENCING FOR THE STUDY OF CYANOBACTERIAL DIVERSITY IN ANTARCTIC AQUATIC MATS 1. Journal of Phycology, 52, 356–368. doi:10.1111/jpy.12399
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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.

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
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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.

Wilmotte, A., Renard, M., Kleinteich, J., Lara, Y., Cornet, L., Baurain, D., Silva-Stenico, M., Fiore, M., Laughinghouse, H. D., Puschkareva, E., & Elster, J. (07 September 2015). The BCCM/ULC culture collection to conserve, document and explore the polar cyanobacterial diversity [Poster presentation]. 6th Symposium on Polar and Alpine Microbiology, Ceske Budejovice, Czechia.

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.

Crasson, O., Legrand, F., Léonard, R., Baurain, D., Galleni, M., & Vandevenne, M. (August 2015). The hidden face of the human macrophage chitotriosidase: taking a new look at this enzyme based on the biochemical and phylogenomic analysis of its chitin binding domain [Poster presentation]. Gordon Research Conferences : Cellulosomes, Cellulases & Other Carbohydrate Modifying Enzymes, Andover MA, United States.

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
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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
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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.

Wilmotte, A., Stelmach Pessi, I., De Carvalho, P., Laughinghouse, H. D., & Baurain, D. (August 2014). Unveiling biogeographic patterns of Antarctic cyanobacteria by 454 pyrosequencing [Poster presentation]. XXX111 SCAR Biennial Meetings and Open Science Conference 2014’, Auckland, New Zealand.

Mauroy, A., Taminiau, B., Nezer, C., Ghurburrun, E., Baurain, D., Daube, G., & Thiry, E. (July 2014). High throughput sequencing analysis reveals genetic variability and selection pressure in different murine norovirus genomic regions during in vitro replication [Poster presentation]. International Union of Microbiological Societies (IUMS 2014) – XIVth International Congress of Bacteriology and Applied Microbiology, XIVth International Congress of Mycology, XVIth International Congress of Virology, Montréal, Canada.

Cornet, L., Javaux, E., Wilmotte, A., Philippe, H., & Baurain, D. (24 June 2014). A Phylogenomic analysis of the origin of plastids [Paper presentation]. ESF-EMBO Symposium Biology of Platsids, Pultusk, Poland.
Peer reviewed

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.

Mauroy, A., Taminiau, B., Nezer, C., Ghurburrun, E., Baurain, D., Daube, G., & Thiry, E. (March 2014). L'analyse par séquençage à haut débit révèle la variabilité génétique et la pression de sélection dans différentes régions génomiques du norovirus murin durant sa réplication in vitro [Paper presentation]. XVIe Journées Francophones de Virologie, Paris, France.

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
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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
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Di Franco, A., Hanikenne, M., & Baurain, D. (09 December 2013). Identifying losses and expansions of selected gene families in incomplete genomic datasets [Poster presentation]. 8th Benelux Bioinformatics Conference, Bruxelles, Belgium.

Stelmach Pessi, I., de Carvalho Maalouf, P., Laughinghouse IV, H. D., Baurain, D., & Wilmotte, A. (November 2013). Assessment of bioinformatic pipelines for the analysis of 454 pyrosequencing data using artificial cyanobacterial communities [Poster presentation]. Microbial Diversity for Science and Industry, Brussels, Belgium.

Baurain, D. (18 April 2013). Computers As Genomic Time Machines for Meeting our Ancestors [Paper presentation]. Bioforum 2013, Liège, Belgium.

Amemiya, C. T., Alfoldi, J., Lee, A. P., Fan, S., Philippe, H., Maccallum, I., Braasch, I., Manousaki, T., Schneider, I., Rohner, N., Organ, C., Chalopin, D., Smith, J. J., Robinson, M., Dorrington, R. A., Gerdol, M., Aken, B., Biscotti, M. A., Barucca, M., ... Lindblad-Toh, K. (2013). The African coelacanth genome provides insights into tetrapod evolution. Nature, 496 (7445), 311-6. doi:10.1038/nature12027
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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
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Roure, B., Baurain, D., & Philippe, H. (January 2013). Impact of Missing Data on Phylogenies Inferred from Empirical Phylogenomic Data Sets. Molecular Biology and Evolution, 30 (1), 197-214. doi:10.1093/molbev/mss208
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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
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* These authors have contributed equally to this work.

Durkin, K., Cambisano, N., Ahariz, N., Fasquelle, C., Karim, L., Sartelet, A., Baurain, D., Drogemüller, C., Leeb, T., Coppieters, W., Georges, M., & Charlier, C. (May 2011). Molecular dissection of the color-sided phenotype in cattle reveals a novel mechanism of chromosome evolution involving circular shuttling intermediates. Chromosome Research, 19 (S1), 18.
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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
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Karim, L.* , Takeda, H.* , Lin, L.* , Druet, T.* , Arias, J. A. C., Baurain, D., Cambisano, N., Davis, S. R., Farnir, F., Grisart, B., Harris, B. L., Keehan, M. D., Littlejohn, M. D., Spelman, R. J., Georges, M.* , & Coppieters, W.*. (2011). Variants modulating the expression of a chromosome domain encompassing PLAG1 influence bovine stature. Nature Genetics, 43 (5), 405-13. doi:10.1038/ng.814
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* These authors have contributed equally to this work.

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). Phylogenomic evidence for separate acquisition of plastids in cryptophytes, haptophytes, and stramenopiles. Molecular Biology and Evolution, 27 (7), 1698-709. doi:10.1093/molbev/msq059
Peer Reviewed verified by ORBi

Lapaille, M., Escobar-Ramirez, A., Degand, H., Baurain, D., Rodriguez-Salianas, E., Coosemans, N., Boutry, M., Gonzalez-Halphen, D., Remacle, C., & Cardol, P. (July 2010). Atypical subunit composition of the chlorophycean mitochondrial F1FO ATP synthase and role of Asa7 protein in stability and oligomycin resistance of the enzyme. Molecular Biology and Evolution, 27 (7), 1630-1644. doi:10.1093/molbev/msq049
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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.

Hiard, S., Charlier, C., Coppieters, W., Georges, M., & Baurain, D. (2010). Patrocles: a database of polymorphic miRNA-mediated gene regulation in vertebrates. Nucleic Acids Research, 38 (Database), 640-D651. doi:10.1093/nar/gkp926
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Caiment, F., Charlier, C., Hadfield, T., Cockett, N., Georges, M.* , & Baurain, D.*. (2010). Assessing the effect of the CLPG mutation on the microRNA catalog of skeletal muscle using high-throughput sequencing. Genome Research, 20 (12), 1651-62. doi:10.1101/gr.108787.110
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* These authors have contributed equally to this work.

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.

Baurain, D., & Philippe, H. (2010). Current approaches to phylogenomic reconstruction. In G. Caetano-Anollés (Ed.), Evolutionary Genomics and Systems Biology (pp. 17-41). Hoboken, United States - New Jersey: Wiley-Blackwell. doi:10.1002/9780470570418.ch2

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

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.

Califice, S., Baurain, D., Hanikenne, M., & Motte, P. (05 February 2009). Origin and evolution of SR proteins in Eukaryotes [Poster presentation]. High throughput technologies for alternative splicing, Valencia, Spain.

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
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Brinkmann, H., Baurain, D., & Philippe, H. (2007). Phylogenomics: how far back in the past can we go? In R. Pudritz, P. Higgs, ... J. Stone (Eds.), Planetary Systems and the Origins of Life (pp. 149-177). Cambridge, United Kingdom: Cambridge University Press.

Baurain, D., Brinkmann, H., & Philippe, H. (January 2007). Lack of resolution in the animal phylogeny: Closely spaced cladogeneses or undetected systematic errors? Molecular Biology and Evolution, 24 (1), 6-9. doi:10.1093/molbev/msl137
Peer Reviewed verified by ORBi

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.

Delsuc, F., Baurain, D., & Philippe, H. (2006). Vertebrate origins: does the tunic make the man? MS. Medecine Sciences, 22 (8-9, AUG-SEP), 688-690. doi:10.1051/medsci/20062289688
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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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

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. (26 October 2004). Condensé de biologie moléculaire à l'usage des biomathématiques et de la bioinformatique [Paper presentation]. Analyse par ondelettes des séquences d’ADN : les mathématiques à la croisée de la biochimie, Liège, Belgium.

Baurain, D. (December 2003). La recherche appliquée privilégiée. Espace de Libertés: Magazine du Centre d'Action Laïque, Document 11, p. 28-30.

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
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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
Peer Reviewed verified by ORBi

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
Peer Reviewed verified by ORBi

Remacle, C., Baurain, D., Cardol, P., & Matagne, R.-F. (July 2001). Mutants of Chlamydomonas reinhardtii deficient in mitochondrial complex I: Characterization of two mutations affecting the nd1 coding sequence. Genetics, 158 (3), 1051-60.
Peer Reviewed verified by ORBi

Baurain, D., Dinant, M., & Matagne, R.-F. (May 2001). Transcriptional regulation of the Chlamydomonas alternative oxidase (Aox1) gene studied with a reporter gene construct [Poster presentation]. Bioforum 2001, Liège, Belgium.

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
Peer Reviewed verified by ORBi
* These authors have contributed equally to this work.

Baurain, D., & Wilmotte, A. (13 March 2001). Analyse de séquences d'ITS de souches d'Arthrospira provenant de quatre continents [Paper presentation]. Séminaire de Botanique, Liège, Belgium.

Baurain, D., Matagne, R.-F., & Dinant, M. (May 2000). The alternative oxidase genes and their expression in Chlamydomonas [Poster presentation]. 9th International Conference on the Cell and Molecular Biology of Chlamydomonas, Nordwijkerhout, Netherlands.

Remacle, C., Baurain, D., Colin, M., & Matagne, R.-F. (2000). Isolation and characterization of respiratory NADH:ubiquinone oxidoreductase (complex I) mutants in Chlamydomonas reinhardtii. Archives of Physiology and Biochemistry, 108 (Supplement 1), 10.

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
Peer Reviewed verified by ORBi

Baurain, D., Scheldeman, P., Renquin, L., Bouhy, R., & Wilmotte, A. (1999). Characterization of Arthrospira / Spirulina strains: Molecular Aspects. https://orbi.uliege.be/handle/2268/80701

Baurain, D., Belay, A., & Wilmotte, A. (May 1998). Molecular systematics of Arthrospira ('Spirulina') strains based on rRNA sequence analysis [Poster presentation]. Bioforum 1998, Liège, Belgium.

Baurain, D., Dinant, M., Loppes, R., & Matagne, R.-F. (May 1998). Genetic manipulations in Chlamydomonas reinhardtii: Use of the antisense strategy to inhibit the alternative oxidase [Poster presentation]. Bioforum 1998, Liège, Belgium.

Dinant, M., Baurain, D., & Matagne, R.-F. (1998). Characterization of a cDNA encoding the mitochondrial alternative oxidase (AOX) in Chlamydomonas reinhardtii and assays of AOX inactivation by the antisense strategy. In I. M. Møller, P. Gardeström, K. Glimelius, ... E. Glaser (Eds.), Plant Mitochondria: From Gene to Function (pp. 441-444). Leiden, Netherlands: Backhuys Publishers.
Peer reviewed

Baurain, D., Dinant, M., Loppes, R., & Matagne, R.-F. (1998). Role of alternative oxidase (AOX) in Chlamydomonas reinhardtii: Isolation and characterization of transgenic clones carrying an antisense Aox construct. Archives of Physiology and Biochemistry, 106, 3.

Baurain, D. (February 1992). VGA-MAC : Visualiser des images de MAC en VGA. PC Micro-Informatique, 59, p. 31-5.

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