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@article{TeletcheaTNF2025,

title = {Molecular determinants of TNFR1:TNFα binding and dynamics in a physiological membrane environment},

author = {Elena Álvarez-Sánchez and Simon Huet and Stéphane Téletchéa},

editor = {Elsevier},

doi = {10.1016/j.crstbi.2025.100177},

year  = {2026},

date = {2026-06-01},

urldate = {2025-12-18},

journal = {Current Research in Structural Biology},

volume = {26},

pages = {100177},

abstract = {Tumor Necrosis Factor alpha (TNFα) is a pro-inflammatory cytokine critical for regulating cell survival and death. Under pathological conditions, excessive TNFα activity can lead to chronic inflammation, contributing to diseases such as inflammatory bowel disease and other autoimmune disorders. While structural studies have elucidated the atomistic details of TNFα binding to its receptor, TNF Receptor 1 (TNFR1), the influence of the membrane environment on this interaction remains poorly characterized experimentally. In this study, we employed advanced all-atom Gaussian accelerated molecular dynamics simulations to investigate how lipid-mediated interactions modulate the TNFα–TNFR1 complex. We identified key residues on both the cytokine and its receptor that govern trimer assembly, receptor binding, and potential pathological alterations. Our analysis confirmed previously identified functional sites and revealed new residues likely to contribute to the structural stability and dynamics of the complex. These findings provide a more comprehensive understanding of the molecular determinants of TNF signaling and offer a foundation for future experimental investigations into the receptor-ligand interface and membrane-mediated regulation.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Gamage2026b,

title = {Characterising key bacterial taxa of the benthic diatom Amphora sp. biofilms in a porous substrate photobioreactor},

author = {Nadeeshani Dehel Gamage and Paul Déléris and Leïla Tirichine and Gaëtane Wielgosz-Collin and Thierry Lebeau and Aurélie Mossion and Vona Méléder},

doi = {10.1016/j.biteb.2026.102686},

issn = {2589-014X},

year  = {2026},

date = {2026-06-00},

urldate = {2026-06-00},

journal = {Bioresource Technology Reports},

volume = {34},

publisher = {Elsevier BV},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Characterising key bacterial taxa of the benthic diatom Amphora sp. biofilms in a porous substrate photobioreactor},

author = {Nadeeshani Dehel Gamage and Paul D´el´eris and Leïla Tirichine and Gaetane and Wielgosz-Collin ,

and Thierry Lebeau and Aurélie Mossion and Vona Méléder},

doi = {https://doi.org/10.1016/j.biteb.2026.102686},

year  = {2026},

date = {2026-03-10},

urldate = {2026-03-10},

journal = {Bioresource Technology Reports},

volume = {34},

pages = {102686},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Wu2025,

title = {The RING1 subunit of Polycomb Repressive Complex 1 monoubiquitinates histone H2A                    and mediates repression independently of Polycomb Repressive Complex 2 in the model diatom                    \textit{Phaeodactylum tricornutum}},

author = {Yue Wu and Xue Zhao and Jing Xuan Chen and Timothée Chaumier and Leïla Tirichine},

doi = {10.1111/nph.70802},

issn = {1469-8137},

year  = {2026},

date = {2026-03-00},

urldate = {2026-03-00},

journal = {New Phytologist},

volume = {249},

number = {5},

pages = {2421--2434},

publisher = {Wiley},

abstract = {<jats:title>Summary</jats:title>

                  <jats:p>

                    <jats:list list-type="bullet">

                      <jats:list-item>

                        <jats:p>

                          Polycomb Repressive Complex 1 (PRC1) and its associated mark, H2A monoubiquitination (H2Aub), cooperate with PRC2 for transcriptional silencing in multicellular organisms. However, PRC1 is absent from many unicellular lineages, leaving its functional conservation and relationship with PRC2 unclear. In the model diatom

                          <jats:italic>Phaeodactylum tricornutum</jats:italic>

                          , the role of the PRC1 subunit RING1 was investigated to assess whether PRC1‐mediated repression is evolutionary conserved and how it interacts with PRC2.

                        </jats:p>

                      </jats:list-item>

                      <jats:list-item>

                        <jats:p>RING1 knockout mutants were generated to investigate H2Aub deposition. Genome‐wide H2Aub profiles were integrated with existing H3K27me3 maps, and transcriptome analyses were performed to compare RING1 and the PRC2 catalytic subunit Enhancer of Zeste mutants, thereby evaluating their respective contributions to gene and transposable elements (TEs) repression.</jats:p>

                      </jats:list-item>

                      <jats:list-item>

                        <jats:p>Loss of RING1 abolished H2Aub and revealed that H2Aub predominantly marks repressed genes lacking H3K27me3, while both marks colocalize on TEs. Transcriptome data indicate that H2Aub primarily mediates repression of genes with high H2Aub enrichment, whereas TEs marked by both H2Aub and H3K27me3 are mainly regulated by H3K27me3.</jats:p>

                      </jats:list-item>

                      <jats:list-item>

                        <jats:p>

                          These results demonstrate that PRC1 and PRC2, which originated before multicellularity, act independently to establish transcriptional silencing in

                          <jats:italic>P. tricornutum</jats:italic>

                          . PRC1 is functionally conserved in this diatom, with H2Aub and H3K27me3 fulfilling distinct yet complementary regulatory roles.

                        </jats:p>

                      </jats:list-item>

                    </jats:list>

                  </jats:p>},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Khatei2026,

title = {Comparative view of DNA methylation in stramenopiles and other eukaryotes: Focus on 5-methylcytosine},

author = {Ananya Khatei and Leïla Tirichine and M. Junaid Sidiq and J. Mark Cock and Alexander Juterbock},

doi = {10.1016/j.algal.2026.104551},

issn = {2211-9264},

year  = {2026},

date = {2026-03-00},

urldate = {2026-03-00},

journal = {Algal Research},

volume = {94},

publisher = {Elsevier BV},

keywords = {},

pubstate = {published},

tppubtype = {article}

}