Biology subjects

Rubio, L.

Publications and source records attributed to Rubio, L..

9 recordsLinked to original sources

bioRxiv2026

Synaptotagmin-mediated plasma membrane homeostasis is required to recruit the endocytic machinery during cold stress

Endocytosis depends on plasma membrane (PM) lipid composition, yet how plants sustain endocytic machinery recruitment during stress remains unclear. We investigated whether synaptotagmins SYT1 and SYT3 function in membrane homeostasis and endocytosis in Arabidopsis thaliana. In this work, we revealed that cold stress reversibly blocked FM4-64 internalization in syt1syt3 double mutants by displacing peripheral and core TPC subunits from the PM. Loss of SYT1 reduced brassinosteroid receptor internalization during cold stress, while double mutants showed enhanced brassinosteroid signaling. SYTs and VAP27 genes showed a condition-dependent genetic interaction in endocytosis: the syt1/vap27-1/vap27-3 triple mutant resembles vap27-1/vap27-3 under control conditions and syt1 during cold stress, suggesting overlapping contributions to endocytic regulation. Using molecular dynamics simulations of protein-membrane interactions, phosphoinositide depletion combined with increased diacylglycerol weakened TPC core membrane association. Our findings identify SYT1 and SYT3 as essential components for sustaining endocytosis during abiotic stress and support a model in which lipid homeostasis at endoplasmic reticulum-PM contact sites preserves the membrane composition required for TPC-dependent endocytosis.

plant biology↗

bioRxiv2026

THE MULTIFUNCTIONAL PROTEIN E4F1 REGULATES MELANOCYTIC FUNCTIONS IN MICE THROUGH PROTEIN TRANSLATION AND MITF EXPRESSION

The multifunctional protein E4 transcription factor 1 (E4F1) is an essential regulator of skin homeostasis, playing a critical role in epidermal stem cell maintenance and keratinocyte differentiation. However, the functions of E4F1 in other skin cell type remain poorly investigated. Here, we describe its role in melanogenesis, the physiological process for synthesis of melanin pigments. Using genetically engineered mouse models that enabled conditional inactivation of E4f1 specifically in melanocytes, we demonstrated that E4f1 loss induces severe pigmentation defects without affecting melanocyte survival nor differentiation. At the molecular level, E4f1 depletion reduces the expression of its direct transcriptional target genes involved in protein translation, including Elp3 and Eef1g, leading to translation alterations and consequently the induction of the Integrated Stress Response (ISR). This response resulted in microphthalmia-associated transcription factor (MITF) downregulation, inducing a decrease in the expression of enzymes involved in melanin synthesis. Consistent with these findings, Elp3 or Eef1g depletion recapitulated the decrease in MITF levels in vitro, and pharmacological inhibition of ISR partially rescued melanin content in vivo, confirming a key role of the E4F1-protein translation-ISR cascade in melanogenesis. Together, our data identify E4F1-associated translation functions as a key regulator of the melanocytic lineage.

physiology↗

bioRxiv2026

Integration of SYT1 Interactomics and Dual-Localization Proteomics Links ER-PM Contacts to Lignin Deposition

Membrane contact sites (MCSs) are evolutionarily conserved intracellular nanodomains that physically bridge opposing lipid bilayers to facilitate non-vesicular communication and maintain cellular homeostasis. In plants, endoplasmic reticulum-plasma membrane (ER-PM) contact sites play fundamental roles in environmental adaptation, and are populated by specialized proteins which act as tethers such as Synaptotagmin 1 (SYT1). However, a comprehensive view of the molecular machinery governing processes at these junctions is still needed. In this work, we integrate affinity purification mass spectrometry, TurboID proximity labeling, and a dual-localization reanalysis of HyperLOPIT spatial proteomics to functionally map the protein interaction landscape of the ER-PM contact sites protein SYT1. Beyond recovering established ER-PM MCS functions, our analysis identified uncharacterized proteins as bona fide resident components of these junctions, and revealed that these nanodomains act as docking platforms that anchor the monolignol biosynthetic complex. By spatially organizing Membrane Steroid Binding Proteins and cytochrome P450 enzymes, our findings support a model where SYT1-mediated anchoring of this metabolon to ER-PM contact sites optimizes monolignol export required for stress-induced lignification. Ultimately, this proteomic framework expands the functional repertoire of ER-PM contact sites, opening new avenues to uncover hidden roles of MCSs across diverse eukaryotic systems.

molecular biology↗

bioRxiv2026

Enhanced production of nitrogenase components in Nicotiana benthamiana through co-expression with Bacterioferritin A

O_LIEngineering nitrogen fixing crops requires not only transferring the nitrogenase structural genes, but also the accessory genes to synthesize its iron-sulphur cofactors. Scaffold protein NifU is a critical element in this system as the starting point of nitrogenase cofactor assembly. NifU has been successfully produced in plants, however, its optimal production required high levels of iron in the medium. This is likely due to a faulty connection with the endogenous iron trafficking network C_LIO_LITo identify specific elements targeting iron to NifU, pull-down assays were performed to identify showing bacterioferritin A (BfrA) as a likely candidate. Co-immunopurification, mutant characterization, iron transfer assays, and co-expression in Nicotiana benthamiana assays were carried out. C_LIO_LIBfrA transfers iron to NifU through protein-protein interactions. When these two proteins were co-expressed in N. benthamiana leaves, there was an increase in NifU production. In turn, it led to doubling NifH synthesis, a nitrogenase structural protein that is also required for the synthesis of the more complex nitrogenase cofactors. C_LIO_LIOur results provide a new element towards engineering nitrogen-fixing crops. They also underscore the importance of transferring the metal delivery systems when expressing metalloproteins in heterologous systems. C_LI

Plant Biology↗

bioRxiv2026

Phosphorylation of TTL3 by BIK1 Functions as a Molecular Switch to Control Cellulose Biosynthesis under Salt Stress

Cellulose, a central structural component of plant cell walls, is produced by cellulose synthase complexes (CSCs) at the plasma membrane. Salinity stress is particularly damaging to cellulose biosynthesis, and therefore, plants have developed adaptive mechanisms to cope with these conditions. TETRATRICOPEPTIDE THIOREDOXIN-LIKE (TTL) proteins are essential for growth under salt stress and show a salt-dependent association with CSCs through an as-yet unknown mechanism. Here, we identify a phosphorylation-dependent regulatory mechanism linking salt stress signaling to cellulose biosynthesis through the coordinated action of TTL3 and the receptor-like cytoplasmic kinase BOTRYTIS-INDUCED KINASE 1 (BIK1). Phosphorylation of Serine 93 in the N-terminal intrinsically disordered region of TTL3 controls its localization, retaining it in the cytosol, while dephosphorylation promotes association with CSCs at the plasma membrane. Biochemical and genetic analysis identified BIK1 as the kinase responsible for TTL3-S93 phosphorylation, with bik1 mutants phenocopying the phosphoablative TTL3S93A in vivo. Transcriptomic analyses reveal a strong overlap of differentially expressed genes between bik1 and a cellulose-deficient mutant, supporting a broader role for BIK1 in cell wall regulation. Notably, TTL proteins do not appear to be involved in the assayed canonical immune responses, suggesting pathway specificity downstream of BIK1. Together, these findings define a signaling module that connects salt stress perception to CSCs regulation and establish BIK1-dependent TTL3 phosphorylation as a molecular switch for maintaining cell wall integrity under abiotic stress.

Plant Biology↗

bioRxiv2026

Chronic Exposure to Nanoplastics Alters Stem Cell Type-Specific Mechanisms, Promoting Cancer Development

Increasing levels of nanoplastics (NPLs) in the environment raise concerns about their effects on human health. We investigated the impact of the most prevalent NPLs, namely polyethylene terephthalate (PET) and polystyrene (PS), on stem cells (SCs), which persist for decades, support tissue function, and are often implicated in cancer development. Long-term exposure to both NPLs similarly affected mammary SC features with an enhanced self-renewal and altered 3D organization, without impairing differentiation capacity. Moreover, both NPLs significantly increased invasiveness and anchorage-independent growth, albeit molecular profiling revealed distinct signatures and mechanisms, indicating a shift towards a more aggressive phenotype. NPLs also synergized with BMP2 signaling, known to be disrupted by pollutants. These findings highlight how NPLs may contribute to early pre-neoplastic changes through distinct and cooperative mechanisms.

cancer biology↗

bioRxiv2024

A role for root carbonic anhydrase βCA4 in bicarbonate tolerance of Arabidopsis thaliana

Carbonic anhydrases (CAs) are the main enzymes handling bicarbonate in the different cell compartments. This study analyses the expression of CAs in roots of Arabidopsis thaliana demes differing in tolerance to bicarbonate: the tolerant A1(c+) deme and the sensitive deme, T6(c-). While 10 mM NaCl caused a transient depolarization of the root cell membranes, 10 mM NaHCO3 caused hyperpolarization. This hyperpolarization was much stronger in A1(c+) than in T6(c-). Acetazolamide (AZ), a specific inhibitor of CAs, abolished the hyperpolarizing effect in A1(c+), indicating the implication of CAs in this fast membrane response. The time dependent (3 to 72 h) expression profiles of 14 CAs (CA1-8 and {beta}CA1-6) in roots of A1(c+) and T6(c-) exposed to either control or NaHCO3 (pH 8.3) revealed a bicarbonate specific upregulation of {beta}CA4.1 (from 3 to 12 h) and, although to a lesser extent, of {beta}CA3 in A1(c+). Contrastingly, in T6(c-) {beta}CA4 was downregulated by NaHCO3. Exclusively in A1(c+), the enhanced expression of {beta}CA4 under bicarbonate was parallelled by an increase of PIP1,3, SLAH1, SLAH3, AHA2, and FRO2 gene expression levels. Under HCO3 - exposure, a {beta}ca4 knockout mutant had lower number of lateral roots, lower root diameter and higher MDA root concentrations than the WT. The obtained results indicate that bicarbonate induced root membrane hyperpolarization is the fast (minutes) initial signalling event in the tolerance response, followed by the specific upregulation of {beta}CA4.1 and the genes involved in H20 and CO2 transport, apoplast acidification, ion homeostasis and iron acquisition.

plant biology↗

bioRxiv2024

Unravelling Different Biological Roles Of Plant Synaptotagmins

Endoplasmic Reticulum-Plasma Membrane contact sites (ER-PM CS) are evolutionarily conserved membrane domains found in all eukaryotes, where the endoplasmic reticulum (ER) closely interfaces with the plasma membrane (PM). This short distance, typically 10-30 nm, is achieved in Arabidopsis through the action of tether proteins such as Synaptotagmins (SYTs). Arabidopsis comprises five SYT members (SYT1-SYT5), but whether they possess overlapping or distinct biological functions remains elusive. SYT1 is the best-characterized gene member and plays an essential role in the resistance to abiotic stress. This study reveals that while the functionally redundant SYT1 and SYT3 genes are involved in salt and cold stress resistance, SYT5 is associated with Pseudomonas syringae resistance despite evidence of in vivo interaction between SYT1 and SYT5. Structural phylogenetic analysis indicates that SYT1 and SYT5 clades emerged early in the evolution of land plants. These protein clades exhibit different structural features, rationalizing their distinct biological roles.

plant biology↗

bioRxiv2022

E4F1 COORDINATES PYRUVATE METABOLISM AND THE ACTIVITY OF THE ELONGATOR COMPLEX TO ENSURE PROTEIN TRANSLATION FIDELITY DURING NEURONAL DEVELOPMENT

Pyruvate metabolism defects lead to severe neuropathies such as the Leigh syndrome (LS) but the molecular mechanisms underlying neuronal cell death remain poorly understood. Here, we unravel a connection between pyruvate metabolism and the regulation of the epitranscriptome that is relevant to LS pathogenesis. We identified the transcription factor E4F1 as a key coordinator of AcetylCoenzyme A (AcCoA) production by the pyruvate dehydrogenase complex (PDC) and its utilization as an essential co-factor by the Elongator complex to acetylate tRNAs at the wobble position uridine 34 (U34). E4F1-mediated direct transcriptional regulation of Dlat and Elp3, two genes encoding key subunits of the PDC and of the Elongator complex, respectively, ensured proper translation fidelity and cell survival in the central nervous system (CNS) during mouse embryonic development. Furthermore, analysis of PDH-deficient cells highlighted a crosstalk linking the PDC to ELP3 expression that is perturbed in LS patients.

developmental biology↗