Biology subjects

Rorbach, J.

Publications and source records attributed to Rorbach, J..

8 recordsLinked to original sources

bioRxiv2026

Matrix nucleotide homeostasis couples energetic state to mitochondrial translation

Mitochondrial protein synthesis is essential for oxidative phosphorylation, yet how organellar energetic state regulates the mitochondrial translation machinery remains poorly understood. Here, we show that mitochondrial translation is acutely sensitive to ATP synthase-dependent bioenergetic state. Pharmacological inhibition of the F1Fo-ATP synthase with oligomycin or citreoviridin rapidly and selectively suppresses mitochondrial protein synthesis, while mitoribosome profiling reveals a genome-wide loss of productive ribosome engagement. ATP synthase inhibition induces inner-membrane hyperpolarization, depletes bioavailable matrix ATP, and reduces matrix GTP availability. Relieving hyperpolarization restores nucleotide pools and mitochondrial translation despite persistent ATP synthase inhibition, whereas selective restoration of matrix GTP markedly rescues protein synthesis when adenine nucleotide exchange is restricted. These findings identify matrix GTP availability as a proximal energetic constraint on mitochondrial translation and reveal an organelle-intrinsic mechanism coupling ATP synthase-dependent bioenergetic state to mitoribosome activity.

cell biology↗

bioRxiv2024

The mitochondrial methylation potential gates mitoribosome assembly

S-adenosylmethionine (SAM) is crucial for cellular processes, primarily serving as the principal methyl group donor of the cell and playing a key role in gene regulation and translation on the ribosome. Inside mitochondria, SAM-dependent methylations occur at several steps of gene expression, but their role and significance remain unclear. Using direct long-read RNA sequencing on mouse tissue and mouse embryonic fibroblasts, we demonstrate that the mitochondrial ribosomal gene cluster is not efficiently processed without mitochondrial SAM. This results in the accumulation of unprocessed ribosomal RNA precursors. Protein profiling of ribosome fractions revealed that these precursors are associated with processing and ribosome assembly factors, indicating stalling at an early stage. Structural analysis of the mitochondrial ribosome by cryogenic electron microscopy revealed that mitochondrial SAM is required during peptidyl transferase centre formation and mitochondrial ribosome assembly. Our data thus identify a critical role for methylation at two steps during mitochondrial gene expression.

molecular biology↗

bioRxiv2024

Multi-layered dosage compensation of the avian Z chromosome

Sex-chromosome dosage represents a challenge for heterogametic species to maintain correct proportion of gene products across chromosomes in each sex. While therian mammals (XX/XY system) achieve near-perfect balance of X-chromosome mRNAs through X-upregulation and X-inactivation, birds (ZW/ZZ system) have been found to lack efficient compensation at RNA level, challenging the necessity of resolving major gene-dosage discrepancies in avian cells. Through allele-resolved multiome analyses, we comprehensively examined dosage compensation in female (ZW), male (ZZ), and rare intersex (ZZW) chicken. Remarkably, this revealed that females exhibit upregulation of their single Z through increased transcriptional burst frequency similar to mammalian X-upregulation, and that Z-protein levels are further balanced via enhanced translation efficiency in females. Global analyses of transcriptional kinetics elements in birds demonstrate remarkable conservation of the genomic encoding of burst kinetics between mammals and birds. Our study uncovers new mechanisms for achieving sex-chromosome dosage compensation and highlights the importance of gene-dosage balance across diverse species.

molecular biology↗

bioRxiv2022

Structural basis of streptomycin off-target binding to human mitoribosome

The ribosome in mitochondria regulates cellular energy production, and its deactivation is associated with pathologies and ageing. Inhibition of human mitoribosome can be caused by antimicrobial off-target binding, which leads to clinical appearances. The anti-tuberculosis drug aminoglycoside streptomycin targets the small subunit and was shown to be coupled with a bilateral decreased visual acuity with central scotomas and an altered mitochondrial structure. Previously, we reported mitochondria-specific aspects of translation related to specialties of the human mitoribosome (Aibara et al., 2020). In this Research advance article, we report 2.23-[A] resolution structure of the human mitoribosomal small subunit in complex with streptomycin. The structural data reveals new details of the streptomycin interactions, including specific water molecules and metal ions involved in the coordination. The density for the streptose moiety reveals that previously modeled aldehyde group appears as a loosely bound density, and the hydroxyl group is not resolved. The density replacing the aldehyde group is within hydrogen bonding distance of four phosphate groups of rRNA, suggesting that the ribosome-bound streptomycin is likely to be in the hydrated gem-diol form rather than in the free aldehyde form. Since streptomycin is a widely used drug for treatment, the newly resolved fine features can serve as determinants for targeting.

molecular biology↗

bioRxiv2021

Structural basis for late maturation steps of the human mitoribosomal large subunit

Mitochondrial ribosomes (mitoribosomes) synthezise a critical set of proteins essential for oxidative phosphorylation. Therefore, their function is vital to cellular energy supply and mitoribosomal defects give rise to a large and diverse group of human diseases 1. The architecture of mitoribosomes is strikingly different from that of their bacterial and eukaryotic cytosolic counterparts and display high divergence between species 2-6. Mitoribosome biogenesis follows distinct molecular pathways that remain poorly understood. Here, we determined the cryo-EM structures of mitoribosomes isolated from human cell lines with either depleted or overexpressed mitoribosome assembly factor GTPBP5. This allowed us to capture consecutive steps during mitoribosomal large subunit (mt-LSU) biogenesis that involve normally short-lived assembly intermediates. Our structures provide important insights into the last steps of 16S rRNA folding, methylation and peptidyl transferase centre (PTC) completion, which require the coordinated action of nine assembly factors. We show that mammalian-specific MTERF4 contributes to the folding of 16S rRNA, allowing 16S rRNA methylation by MRM2, while GTPBP5 and NSUN4 promote fine-tuning rRNA rearrangments leading to PTC formation. Moreover, our data reveal an unexpected role for the elongation factor mtEF-Tu in mt-LSU assembly, in which mt-EF-Tu interacts with GTPBP5 in a manner similar to its interaction with tRNA during translational elongation. Together, our approaches provide detailed understanding of the last stages of mt-LSU biogenesis that are unique to mammalian mitochondria.

biochemistry↗

bioRxiv2020

Achieving symptom relief in patients with Myalgic encephalomyelitis by targeting the neuro-immune interface and inducing disease tolerance

Myalgic encephalomyelitis, ME, previously also known as chronic fatigue syndrome (CFS) is a heterogeneous, debilitating syndrome of unknown etiology responsible for long-lasting disability in millions of patients worldwide. The most well-known symptom of ME is post-exertional malaise, but many patients also experience autonomic dysregulation, cranial nerve dysfunction and signs of immune system activation. Many patients also report a sudden onset of disease following an infection. The brainstem is a suspected focal point in ME pathogenesis and patients with structural impairment to the brainstem often show ME-like symptoms. The brainstem is also where the vagus nerve originates, a critical neuro-immune interface and mediator of the inflammatory reflex which regulate systemic inflammation. Here we report the results of a randomized, placebo-controlled trial using intranasal mechanical stimulation (INMEST) targeting the vagus nuclei, and higher centers in the brain of ME-patients and induce a sustainable, [~]30% reduction in overall symptom scores after eight weeks of treatment. By performing longitudinal, systems-level monitoring of the blood immune system in these patients, we uncover chronic immune activation in ME, as well as immunological correlates of improvement that center around the IL-17 axis, gut-homing immune cells and reduced inflammation. The mechanisms of symptom relief remains to be determined, but transcriptional analyses suggest an upregulation of disease tolerance mechanisms. We wish for these results to bring some hope to patients suffering from ME and inspire researchers to help test our new hypothesis that ME is a condition caused by a failure of inducing disease tolerance upon infection and persistent immune activation.

immunology↗

bioRxiv2020

Differential processing and localization of human Nocturnin controls metabolism of mRNA and nicotinamide dinucleotide metabolites

Nocturnin (NOCT) is a eukaryotic enzyme that belongs to a superfamily of exoribonucleases, endonucleases, and phosphatases. In this study, we analyze the expression, processing, localization, and cellular functions of human NOCT. We demonstrate that the NOCT protein is differentially expressed and processed in a cell and tissue type specific manner as a means to control its localization to the cytoplasm or mitochondria. Our studies also show that the N-terminus of NOCT is necessary and sufficient to confer mitochondrial localization. We then measured the impact of cytoplasmic NOCT on the transcriptome and report that it regulates the levels of hundreds of mRNAs that are enriched for components of signaling pathways, neurological functions, and regulators of osteoblast differentiation. Recent biochemical data indicate that NOCT dephosphorylates nicotinamide adenine dinucleotide (NAD) metabolites, and thus we measured the effect of NOCT on these cofactors in cells. We find that NOCT increases NAD(H) and decreases NADP(H) levels in a manner dependent on its intracellular localization. Collectively, our data indicate that NOCT can regulate levels of both mRNAs and NADP(H) cofactors in manner specified by its intracellular localization.

molecular biology↗

bioRxiv2019

YbeY is required for ribosome small subunit assembly and tRNA processing in human mitochondria

Mitochondria contain their own translation apparatus which enables them to produce the polypeptides encoded in their genome. The mitochondrially-encoded RNA components of the mitochondrial ribosome require various post-transcriptional processing steps. Additional protein factors are required to facilitate the biogenesis of the functional mitoribosome. We have characterised a mitochondrially-localized protein, YbeY, which interacts with the assembling mitoribosome through the small subunit. Loss of YbeY leads to a severe reduction in mitochondrial translation and a loss of cell viability, caused by less accurate mitochondrial mt-tRNASer(AGY) processing from the primary transcript and an accumulation of immature mitochondrial small subunit. Our results suggest that YbeY performs a dual function in mitochondria coupling tRNA processing to mitoribosome biogenesis. Issue SectionNucleic Acid Enzymes O_FIG O_LINKSMALLFIG WIDTH=194 HEIGHT=200 SRC="FIGDIR/small/874305v1_ufig1.gif" ALT="Figure 1"> View larger version (34K): org.highwire.dtl.DTLVardef@12f69cborg.highwire.dtl.DTLVardef@1cac774org.highwire.dtl.DTLVardef@1ec99ccorg.highwire.dtl.DTLVardef@652c59_HPS_FORMAT_FIGEXP M_FIG C_FIG

molecular biology↗