Thématique # 1 : Biologie computationnelle
1-Bajrai LH, Mougari S, Andreani J, Baptiste E, Delerce J, Raoult D, Azhar EI, La Scola B, Levasseur A. Isolation of Yasminevirus, the first member of Klosneuvirinae isolated in coculture with Vermamoeba vermiformis, demonstrates an extended arsenal of translational apparatus components. 2020. Journal of Virology, 94(1). PMID: 31597770
2- Million M, Lagier JC, Gautret P, Colson P, Fournier PE, Amrane S, Hocquart M, Mailhe M, Esteves-Vieira V, Doudier B, Aubry C, Correard F, Giraud-Gatineau A, Roussel Y, Berenger C, Cassir N, Seng P, Zandotti C, Dhiver C, Ravaux I, Tomei C, Eldin C, Tissot-Dupont H, Honoré S, Stein A, Jacquier A, Deharo JC, Chabrière E, Levasseur A, Fenollar F, Rolain JM, Obadia Y, Brouqui P, Drancourt M, La Scola B, Parola P, Raoult D. Early treatment of COVID-19 patients with hydroxychloroquine and azithromycin: A retrospective analysis of 1061 cases in Marseille, France. 2020. Travel Med Infect Dis.101738. doi:10.1016/j.tmaid.2020.101738. PMID: 32387409.
3-Abrahão J, Silva L, Santos Silva L, Yaacoub Bou Khalil J, Rodrigues R, Arantes T, Assis F, Boratto P, Andrade M, Geessien Kroon E, Ribeiro B, Bergier I, Seligmann H, Ghigo E, Colson P, Levasseur A, Kroemer G, Raoult D, La Scola B. Tupanvirus, a tailed giant virus and distant relative of Mimiviridae, possesses the most complete translational apparatus of the virosphere. 2018. Nature Communications, 9:749. PMID: 29487281.
4- Levasseur A, Bekliz M, Chabrière E, Pontarotti P, La Scola B, Raoult D. MIMIVIRE is a defence system in mimivirus that confers resistance to virophage. Nature. 2016, 531(7593):249-52. doi: 10.1038/nature17146. PMID: 26934229.
5- Levasseur A, Andreani J, Delerce J, Bou Khalil J, Robert C, La Scola B, Raoult D. Comparison of a Modern and Fossil Pithovirus Reveals Its Genetic Conservation and Evolution. Genome Biol Evol. 2016, 8(8):2333-9. doi:10.1093/gbe/evw153. PubMed PMID: 27389688.
6- Levasseur A, Merhej V, Baptiste E, Sharma V, Pontarotti P, Raoult D. The Rhizome of Lokiarchaeota Illustrates the Mosaicity of Archaeal Genomes. Genome Biology and Evolution. 2017, 9(10):2635-2639. doi: 10.1093/gbe/evx208. PubMed PMID: 29048529.
7- Lagier JC, Khelaifia S, Alou MT, Ndongo S, Dione N, Hugon P, Caputo A, Cadoret F, Traore SI, Seck EH, Dubourg G, Durand G, Mourembou G, Guilhot E, Togo A, Bellali S, Bachar D, Cassir N, Bittar F, Delerce J, Mailhe M, Ricaboni D, Bilen M, Dangui Nieko NP, Dia Badiane NM, Valles C, Mouelhi D, Diop K, Million M, Musso D, Abrahão J, Azhar EI, Bibi F, Yasir M, Diallo A, Sokhna C, Djossou F, Vitton V, Robert C, Rolain JM, La Scola B, Fournier PE, Levasseur A, Raoult D. Culture of previously uncultured members of the human gut microbiota by culturomics. Nature Microbiology. 2016, 1:16203. doi: 10.1038/nmicrobiol.2016.203. PubMed PMID:27819657.
Thématique # 2 : Evolution du système immunitaire et interactions Hôte-Pathogène
1-Insights into RAG Evolution from the Identification of « Missing Link » Family A RAGL Transposons
Eliza C Martin, Lorlane Le Targa, Louis Tsakou-Ngouafo, Tzu-Pei Fan, Che-Yi Lin, Jianxiong Xiao, Ziwen Huang, Shaochun Yuan, Anlong Xu, Yi-Hsien Su, Andrei-Jose Petrescu, Pierre Pontarotti, David G Schatz. – DOI: 10.1093/molbev/msad232
2-Integration of the immune memory into the pathogen-driven MHC polymorphism hypothesis
Radwan J, Kohi C, Ejsmond M, Paganini J, Pontarotti P. HLA. 2023 Sep 8. doi: 10.1111/tan.15216
3-COVID-19 Pandemic: Escape of Pathogenic Variants and MHC Evolution
Pierre Pontarotti, Julien Paganini, Int. J. Mol. Sci.2022, 23(5), 2665
4- Search for MHC/TCR-Like Systems in Living Organisms
Julien Paganini, Pierre Pontarotti, Front Immunol. 2021 May 4;12:635521
5- Self-Peptidome Variation Shapes Individual Immune Responses.
Pontarotti P, Abi-Rached L, Yeh JH, Paganini J. Trends Genet. 2021 May;37(5):414-420.
doi: 10.1016/j.tig.2020.10.001. Epub 2020 Oct 21. PMID: 33867017.
6- Origins of the RAG Transposome and the MHC.
Tsakou-Ngouafo L, Paganini J, Kaufman J, Pontarotti P. Trends Immunol. 2020 May 25:S1471-4906(20)30097-1.
7- Transposon molecular domestication and the evolution of the RAG recombinase.
Zhang Y, Cheng TC, Huang G, Lu Q, Surleac MD, Mandell JD, Pontarotti P, Petrescu AJ, Xu A, Xiong Y, Schatz DG.Nature. 2019 May;569(7754):79-84.
8- The functional convergence of antibiotic resistance in β-lactamases is not conferred by a simple convergent substitution of amino acid
Keshri V, Arbuckle K, Chabrol O, Rolain JM, Raoult D, Pontarotti P. Evol Appl. 2019 Jul 18;12(9):1812-1822.
9- Immune diversity sheds light on missing variation in worldwide genetic diversity panels.
Abi-Rached L, Gouret P, Yeh JH, Di Cristofaro J, Pontarotti P, Picard C, Paganini J. PLoS One. 2018 Oct 26;13(10):e0206512
