Biology subjects

Cochard, V.

Publications and source records attributed to Cochard, V..

3 recordsLinked to original sources

bioRxiv2026

Low-input proteomics enables proteome and phosphoproteome-scale molecular phenotyping of separase-deficient oocytes

We performed a comprehensive quantitative proteomic analysis of mouse oocytes using as few as 40 oocytes per condition, comparing wild-type and separase knockout oocytes at metaphase I and metaphase II. To this end, we generated a deep proteomic library spanning oocyte cell cycle stages, enabling the identification of numerous phosphosites without phosphopeptide enrichment. We further combined data-dependent (DDA) and data-independent (DIA) acquisition strategies, analyzed through multiple software pipelines in both library-based and library-free modes. Our results reveal extensive proteome remodeling during the metaphase I to metaphase II transition in wild-type oocytes, consistent with dynamic regulation of meiotic processes. As a proof of concept for our workflow, we asked whether separase knockout oocytes--unable to separate chromosomes in meiosis I--progress into meiosis II. Direct comparison of wild-type and separase knockout oocytes at the metaphase II stage revealed minimal global differences, supporting the idea that both conditions converge toward a comparable metaphase II-like cellular state despite distinct chromosomal configurations. However, at a finer scale, specific alterations were detected among chromosome-associated proteins. Notably, Meikin was enriched in separase-deficient metaphase II oocytes, consistent with defective separase-dependent cleavage and subsequent turnover. More broadly, several proteins involved in chromosome organization displayed behavior similar to Meikin, suggesting that separase activity regulates multiple substrates to orchestrate chromosome segregation during female meiosis.

Cell Biology↗

bioRxiv2025

Regulation of cell proliferation by a novel feedback system on Cdk function

The proliferation of eukaryotic cells is regulated by a complex network of regulatory systems that promotes efficient cell cycle progression and ensures proper responses to the environment. Despite this complexity, the core inputs that are necessary and sufficient for robust alternation of DNA replication and mitosis are surprisingly simpler than anticipated. Indeed, fission yeast cells operating with an engineered minimal cell cycle network that lacks the highly conserved Wee1+Cdc25 feedback loops on Cdk1 function are viable, although slow growing. This provides a unique entry for evaluating how such simplified cells can evolve and improve their proliferation potential while exploring unknown mechanisms modulating cell cycle progression. Taking advantage of this model, we applied laboratory evolution assays to minimal fission yeast backgrounds and selected for the emergence of faster growing populations. We found that loss of the small disordered protein Spo12 brings about enhanced population growth in cells lacking the Wee1+Cdc25 mitotic switch. Importantly, we demonstrate that Spo12 defines a new and conserved family of inhibitors of the Cdk-counteracting phosphatase PP2A that are directly regulated by Cdk-dependent phosphorylation. Our results also reveal a trade-off associated with Spo12-dependent regulation, which may have implications for our understanding of the principles underlying the evolution of cell cycle control. Finally, our study highlights how combining simplified circuits with experimental evolution allows for uncovering regulatory elements that may be obscured by network complexity.

cell biology↗

bioRxiv2024

Annulate Lamellae biogenesis is essential for nuclear pore function

Nuclear pore complexes (NPCs) enable nucleocytoplasmic transport. While NPCs primarily localize to the nuclear envelope (NE), they also appear in cytoplasmic endoplasmic reticulum (ER) membranes called annulate lamellae (AL). Though discovered in the mid-20th century, ALs function and biogenesis remain unclear. Previously considered exclusive to embryonic and malignant cells, we find AL in somatic mammalian cells. Under normal conditions, AL store pre-assembled NPCs (AL-NPCs) that integrate into the NE during G1 to support nuclear expansion. Upon pathological stimuli, AL transfer to the NE is impaired, leading to their cytoplasmic accumulation. RanBP2 (Nup358) is essential for AL biogenesis, with its phenylalanine-glycine (FG) repeats promoting AL-NPC scaffold oligomerization. ER-associated Climp63 (CKAP4) directs AL-NPCs to ER sheets and the NE. This AL-driven nuclear pore formation is complementary to the canonical routes, constituting a distinct NPC assembly pathway. Our work uncovers the biogenesis mechanism of AL and the nuclear function of this key cellular organelle.

cell biology↗