Biology subjects

Lange, F.

Publications and source records attributed to Lange, F..

12 recordsLinked to original sources

bioRxiv2026

AMPK reinforces mitochondrial metabolism and suppresses pathological remodeling in Complex V-deficient cardiomyocytes

TMEM70 variants represent the most common nuclear cause of mitochondrial ATP synthase (Complex V) deficiency and are associated with particularly severe cardiac manifestations. Yet, how TMEM70 deficiency disrupts cardiomyocyte metabolic maturation and function remains poorly understood, in part because suitable human disease models are lacking. Here, we model TMEM70-related Complex V deficiency using CRISPR-engineered human induced pluripotent stem cells differentiated into cardiomyocytes. While TMEM70-deficient pluripotent cells retain mitochondrial function, differentiated cardiomyocytes develop reduced mitochondrial membrane potential, impaired respiratory capacity, and pathological remodeling, revealing a differentiation-dependent failure of metabolic maturation. Chronic activation of AMP-activated protein kinase (AMPK) restores mitochondrial respiratory capacity despite persistent Complex V deficiency. Proteomic and metabolomic analyses reveal that AMPK activation in TMEM70-deficient cardiomyocytes reinforces mitochondrial and fatty-acid metabolism while suppressing pathological structural remodeling, accompanied by improved cardiac function. Together, these findings identify AMPK-dependent metabolic remodeling as a state-dependent mechanism of functional rescue in mitochondrial cardiomyopathy.

cell biology↗

bioRxiv2026

Probabilistic mouse-human brain correspondence by multimodal optimal transport

The mouse is the principal model for brain mechanism and disease, allowing experiments that cannot be performed in humans. However, findings often translate poorly because homologous regions differ in relative size and some human territories have no clear mouse counterpart. Here we present OTTER, which learns mouse-human brain correspondence as a probabilistic, parcel-resolution coupling using multimodal fused Gromov-Wasserstein optimal transport, integrating functional and structural connectivity with spatial position and curated homologies. OTTER recovers established homologues on a transcriptomic benchmark and preserves broad cross-species organisation along the cortical areal hierarchy. Applying the coupling to human functional connectivity reveals a graded decline in mouse-based reconstruction across evolutionarily expanded association cortex, with the lowest values in lateral prefrontal territory. Finally, the bidirectional map generates testable human predictions from mouse experiments and ranks mouse circuits corresponding to human clinical targets.

neuroscience↗

bioRxiv2026

Tackling Bias in Cortical Thickness Estimation in UK Biobank Using Harmonisation Approaches

Big neuroimaging data enable researchers to study subtle structural and functional brain changes and relationships between brain characteristics and genetics, lifestyle, and disease factors. However, substantial effort is needed to minimise technical, non-biological differences between data batches to avoid incorrect inferences. In this study, we address a previously identified bias in UK Biobank FreeSurfer IDPs derived from only the T1 image compared to those using both T1 and T2-FLAIR by treating the bias as a batch effect and using harmonisation approaches. We investigate and characterise this bias through direct within-participant comparison at the image and IDP level, comparing the results with those seen in the wider UKB sample. We then assess different methods of addressing the effect of missing T2-FLAIR, starting from simple linear regression before moving to ComBat, a widely used harmonisation method, testing different approaches for applying ComBat and showing its similarity to simple linear regression. Finally, we examine how ComBat estimates vary with batch and sample size. Our results show clear benefits in using both T1 and T2-FLAIR data in FreeSurfer, as opposed to just the T1, which is more common, with the pial surface fitting being less likely to fail and showing greater biologically plausible inter-subject variability. This is particularly important for cortical thickness IDPs, where T2-FLAIR omission leads to reduced true variability and systematic underestimation, as shown through within-participant repeat testing. We demonstrate that ComBat can address this bias, with its standard use (i.e., applied separately on different IDP categories) showing the best improvement in cortical thickness measures where the bias is strongest, and we find that it is important not to pool ComBat priors across different classes of IDPs. Our proposed version of ComBat with a reference batch (i.e., estimating mean and variance only from data with T2-FLAIR available) performed best in recovering both mean and variance differences between batches across different IDP classes and offers a promising approach for cases where a reference batch is clearly identifiable. While ComBat reliably corrects mean (additive) batch effects with relatively small sample sizes ({approx}30 subjects per batch), we show that its variance (multiplicative) correction is substantially less stable, requiring much larger sample sizes and becoming unreliable when batches are small or imbalanced, or when there is a large variance difference between them.

neuroscience↗

bioRxiv2025

Nanobinders for Synaptotagmin 1 enable the analysis of synapticvesicle dynamics in rodent and human models.

Synaptic neurotransmission is a critical hallmark of brain activity and one of the first processes to be affected in neural diseases. Monitoring this process, and in particular synaptic vesicle recycling, in living cells has been instrumental in unraveling mechanisms responsible for neurotransmitter release. However, currently available reporters suffer from major limitations such large probe size or lack of suitability for human neurons, hampering the understanding of human synaptic pathophysiology. Here we describe the NbLumSyt1 toolkit, a panel of nanobody-based affinity probes targeting the luminal domain of the synaptic vesicle protein Synaptotagmin 1 (Syt1). These new tools enable quantitative, non-invasive imaging and functional interrogation of synaptic transmission in human neurons, with unprecedented precision, versatility and cost efficiency, in technologies ranging from fixed-and live-cell super-resolution imaging to electron microscopy and mass spectrometry. Overall, NbLumSyt1 nanobinders provide a valuable platform for human synaptic physiology and pathophysiology, benefiting fundamental neuroscience and translational efforts to study and develop treatments for brain-related disorders.

neuroscience↗

bioRxiv2025

Reactivating a relaxation exercise during sleep to influence cortical hyperarousal in people with frequent nightmares - a randomized crossover trial

Study ObjectivesHigh-frequency EEG activity during sleep (cortical hyperarousal), is a transdiagnostic feature across psychiatric disorders, including nightmare disorder. It is discussed as a target of intervention; however, specific treatment options are yet unavailable. We tested whether exposure to relaxation-associated odor cues during sleep would reduce cortical hyperarousal, i.e. beta (16.25 - 31 Hz), gamma (31.25 - 45 Hz), spindle activity and nightmare occurrence in participants with frequent nightmares. MethodsTwenty-five (21 female, mean age (SD) = 24.94(5.01)) participants, recruited from undergraduate students at University of Luebeck, with [≥]1 nightmare / week received a deep breathing relaxation intervention for one week coupled with an odor. On two subsequent nights in the sleep laboratory, the associated odor (A), or control odor (B) were presented in randomized order in a crossover design with randomization at baseline; participants were blinded to intervention. ResultsN = 11 participants were allocated to AB and n = 14 to BA sequence. Exposure to relaxation-associated odor cues during sleep did not affect beta or gamma activity while spindle count and density were significantly reduced. Reduction in spindle count during reactivation nights correlated with reduced subjective wake-after-sleep-onset. There was no additional impact on nightmare symptoms. There were no adverse events or side effects. ConclusionsThe reactivation of relaxation-associated states with odor cues during sleep may be associated with changes in spectral activity, specifically spindle activity. Future studies should implement multiple nights of reactivation and include different patient groups with cortical hyperarousal to test the transdiagnostic potential of this new intervention.

neuroscience↗

bioRxiv2024

In-situ architecture of the human prohibitin complex

Prohibitins are a highly conserved family of proteins that have been implicated in a variety of functions including mitochondrial stress signalling and housekeeping, cell cycle progression, apoptosis, lifespan regulation and many others1, 2. The human prohibitins PHB1 and PHB2 have been proposed to act as scaffolds within the mitochondrial inner membrane, but their molecular organisation remained elusive. Using an integrative structural biology approach combining quantitative Western blotting, cryo-electron tomography, subtomogram averaging and molecular modelling, we determined the molecular organisation of the human prohibitin complex within the mitochondrial inner membrane. The proposed bell-shaped structure consists of eleven alternating PHB1 and PHB2 molecules. This study reveals an average of about 43 prohibitin complexes per crista, covering 1-3 % of the cristae membranes. These findings provide a structural basis for understanding the functional contributions of prohibitins to the integrity and spatial organisation of the mitochondrial inner membrane.

cell biology↗

bioRxiv2023

The Drosophila MIC10 orthologue has a propensity to polymerize into cristae-shaping filaments

Mitochondria are essential eukaryotic double-membrane organelles. The convoluted mitochondrial inner membrane forms highly organized invaginations, termed cristae, which are crucial for energy metabolism. Cristae formation requires MICOS, a conserved hetero-oligomeric inner membrane complex. The MICOS core subunit MIC10 is a small transmembrane protein that oligomerizes through highly conserved glycine-rich motifs to control cristae formation. Sequence alignments show that D. melanogaster exhibits three MIC10-like proteins with different tissue-specific expression patterns. Here, we show that the ubiquitously expressed Dmel_CG41128/MINOS1b/DmMIC10b is the major MIC10 orthologue in flies. Loss of DmMIC10b disturbs cristae architecture of mitochondria and reduces the life-span and fertility of flies. Moreover, using fluorescence nanoscopy and electron tomography, we demonstrate that despite its high similarity to the MIC10 proteins from yeast and humans, DmMIC10b exhibits the unique ability to polymerize into elongated filaments upon overexpression. DmMIC10b filaments form bundles which accumulate in the intermembrane space and alter the shape of mitochondrial cristae membranes. We show that the formation of the filaments relies on conserved glycine and cysteine residues and is suppressed by co-expression of other MICOS proteins. Thereby, our findings provide new insights into the regulation of MICOS in flies.

cell biology↗

bioRxiv2022

Hepatitis D virus infection of stem cell-derived hepatocytes triggers an IFN- and NFkB-based innate immune response unable to clear infection.

Human pluripotent stem cell-derived hepatocyte-like cells (HLCs) are a valuable model to investigate host-pathogen interactions of hepatitis viruses in a mature and authentic environment. Here, we investigated the susceptibility of HLCs to the Hepatitis D Virus (HDV), a virus that in co-infection with HBV is responsible for the most severe form of viral hepatitis. Cells undergoing hepatic differentiation became susceptible to HDV infection after acquiring expression of the Na+-taurocholate cotransporting polypeptide (NTCP), the receptor mediating HBV and HDV entry. Inoculation of mature HLCs with HDV lead to increasing amounts of intracellular HDV RNA and accumulation of the HDV antigen in the cells. The infection was abrogated when using known entry inhibitors targeting NTCP or by disrupting genome replication using the nucleoside analogue Ribavirin. Upon infection, the HLCs mounted an innate immune response based on induction of the interferons IFNB and L, but not IFNA, and were associated with an upregulation of interferon-stimulated genes. The intensity of this immune response positively correlated with the level of viral replication and was dependant on both the JAK/STAT and NF{kappa}B pathway activation. Importantly, neither this innate immune response nor an exogenous treatment of IFN2b inhibited HDV replication. However, pre-treatment of the HLCs with IFN2b reduced viral infection, suggesting that ISGs may limit early stages of infection. This novel HDV in vitro infection model represents a valuable tool for studying HDV replication and investigating candidate antiviral drugs in cells displaying mature hepatic functions. Lay summaryHDV can infect stem cell-derived hepatocytes through an NTCP-mediated entry process. Infection triggers an IFN and NF{kappa}B dependent innate immune response. However, viral replication seems unaffected by this innate response or by exogenous IFN treatment. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=140 SRC="FIGDIR/small/502443v1_ufig1.gif" ALT="Figure 1"> View larger version (35K): org.highwire.dtl.DTLVardef@44ca7forg.highwire.dtl.DTLVardef@4a7be3org.highwire.dtl.DTLVardef@b9c3corg.highwire.dtl.DTLVardef@3e66c3_HPS_FORMAT_FIGEXP M_FIG C_FIG

immunology↗

bioRxiv2020

Correlative fluorescence microscopy, transmission electron microscopy and secondary ion mass spectrometry (CLEM-SIMS) for cellular imaging

Electron microscopy (EM) has been employed for decades to analyze cell structure. To also analyze the positions and functions of specific proteins, one typically relies on immuno-EM or on a correlation with fluorescence microscopy, in the form of correlated light and electron microscopy (CLEM). Nevertheless, neither of these procedures is able to also address the isotopic composition of cells. To solve this, a correlation with secondary ion mass spectrometry (SIMS) would be necessary. SIMS has been correlated in the past to EM or to fluorescence microscopy in biological samples, but not to CLEM. We achieved this here, using a protocol based on transmission EM, conventional epifluorescence microscopy and nanoSIMS. The protocol is easily applied, and enables the use of all three technologies at high performance parameters. We suggest that CLEM-SIMS will provide substantial information that is currently beyond the scope of conventional correlative approaches.

cell biology↗

bioRxiv2018

Cortical network fingerprints predict deep brain stimulation outcome in dystonia

BackgroundDeep brain stimulation (DBS) is an effective evidence-based therapy for dystonia. However, no unequivocal predictors of therapy responses exist. We investigate whether patients optimally responding to DBS present distinct brain network organization and structural patterns.\n\nMethodsBased on a German multicentre cohort of eighty-two dystonia patients with segmental and generalized dystonia, who received DBS implantation in the globus pallidus internus patients were classified based on the clinical response 36 months after DBS, as superior-outcome group or moderate-outcome group, as above or below 70% motor improvement, respectively. Fifty-one patients met MRI-quality and treatment response requirements (mean age 51.3 {+/-} 13.2 years; 25 female) and were included into further analysis. From preoperative MRI we assessed cortical thickness and structural covariance, which were then fed into network analysis using graph theory. We designed a support vector machine to classify subjects for the clinical response based on group network properties and individual grey matter fingerprints.\n\nResultsThe moderate-outcome group showed cortical atrophy mainly in the sensorimotor and visuomotor areas and disturbed network topology in these regions. From all the structural integrity of the cortical mantle explained about 45% of the stimulation amplitude. Classification analyses achieved 88% of accuracy using individual grey matter atrophy patterns to predict DBS outcome.\n\nConclusionsThe analysis of cortical integrity and network properties could be developed into independent predictors to identify dystonia patients who benefit from DBS.

neuroscience↗

bioRxiv2018

Pathway maps enable straightforward yet customized and semi-automated yet insightful analyses of omics data

To explore the molecular processes underlying some biological theme of interest based on public data, gene lists are used herein as input for the construction of annotated pathway maps, employing Cytoscape apps, and then high-throughput (\"omics\") gene expression data are overlaid onto these maps. Seeded with a published set of marker genes of the senescence-associated secretory phenotype and the genes of the cellular senescence KEGG pathway, a gene/protein interaction network and annotated clusters (a \"pathway map\") of cellular senescence are derived. The map can be amended, by adding some application-specific genes, and overlaid with gene expression data describing cellular senescence of fibroblasts and with disease-related gene expression data associated with prostate and pancreatic cancer, and with ischemic stroke, allowing insights into the role of cellular senescence in disease. Some gene expression data are derived from the \"Biomarker Benchmark repository\". The pathway map approach can be followed in principle for any biological theme of interest, fostering much-needed independence from the investigator-biased expert networks usually used for overlaying gene expression data.

genomics↗

bioRxiv2017

Combination of mitochondrial tRNA and OXPHOS mutation reduces lifespan and physical condition in aged mice

Mutations in the mitochondrial DNA (mtDNA) are widely known to impact on lifespan and tissue integrity. For example, more than 250 pathogenic mtDNA mutations are known, many of which lead to neurological symptoms. In addition, major neurodegenerative diseases share key components of their etiopathogenesis with regard to mtDNA mutations, mitochondrial dysfunction and oxidative stress. In our study we used a set of conplastic mouse models carrying stable point mutations in mitochondrial genes of transfer RNA (tRNA) and oxidative phosphorylation (OXPHOS)-proteins. We analyzed the impact of these mutations on complex traits like lifespan, learning and memory in the ageing process. The combination of both point mutations in the OXPHOS complex IV gene and adenine insertions in the mitochondrially encoded tRNA arginine (tRNA-Arg) gene (mt-Tr) leads to an age-dependent phenotype with elevated mitochondrial superoxide production in the neocortex. Mice with this combination of tRNA and OXPHOS mutations show significantly reduced lifespan and poor physical constitution at the age of 24 months, whereas single point mutations in OXPHOS or mt-tRNA(Arg) do not have this impact. Therefore, we suggest a synergistic effect of these mutations.

developmental biology↗