Biology subjects

Manninen, T.

Publications and source records attributed to Manninen, T..

3 recordsLinked to original sources

bioRxiv2025

Nutrient-dependent pathology in mitochondrial hypertrophic cardiomyopathy model

ObjectiveMitochondrial translation defects are a major cause of early childhood hypertrophic cardiomyopathy (CMP). While the genetic basis of these disorders is being increasingly uncovered, the downstream molecular mechanisms driving disease pathogenesis remain poorly understood. In this study, we investigated the consequences of defects in mitochondrial ribosomal large subunit protein 44 (MRPL44), associated with infantile-onset CMP in human cardiomyocytes, in nutrient environments relevant to cardiac development. MethodsInduced pluripotent stem cell line with MRPL44 patient mutation and controls were differentiated to cardiomyocytes and grown in glucose or lipid-enriched medium reflecting prenatal or postnatal fuel preferences, respectively. Mitochondrial, lipid metabolic and cellular characteristics were studied by immunofluorescence and cellular transcriptome by RNA-sequencing. ResultsIn glucose-rich medium, patient-derived cardiomyocytes exhibit increased mitochondrial DNA (mtDNA) content and elevated mitochondrial transcripts. In contrast the lipid-enriched medium triggered both mitochondrial and endoplasmic reticulum -related stress responses, disrupted lipid and cholesterol homeostasis, accompanied by remodeling of the central biosynthetic pathway of one carbon metabolism. The cells accumulated lipids while also inducing lipid uptake and synthesis genes, suggesting maladaptive metabolic rewiring. ConclusionOur findings indicate that glucose and lipids, the latter being the postnatally favored cardiac fuel, exert remarkably different consequences in MRPL44 deficient cardiomyocytes. The lipid enriched medium elicited robust activation of metabolic stress responses, with chronic upregulation of anabolic biosynthesis pathways and lipid accumulation indicative of conflicting metabolic homeostasis. These observations provide a mechanistic basis for postnatal disease manifestation and highlight nutrient metabolism as a key driver in development of infantile-onset mitochondrial hypertrophic cardiomyopathy. HighlightsO_LIMRPL44 deficiency impairs mitochondrial translation but induces mtDNA replication and transcription in iPSC-derived cardiomyocytes. C_LIO_LIIn glucose conditions, MRPL44 mutant cardiomyocytes upregulate mitochondrial replication and transcription program, but not translation. C_LIO_LILipid-enriched nutrient conditions exacerbate disease phenotype, inducing mitochondrial and ER stress responses in MRPL44 deficiency. C_LIO_LIMitochondrial ribosome defect disrupts lipid homeostasis in cardiomyocytes causing impaired fatty acid oxidation, lipid accumulation and altered cholesterol metabolism. C_LI

molecular biology↗

bioRxiv2025

Pre- and postsynaptic mechanisms of neuronal inhibition assessed through biochemically detailed modelling of GABAB receptor signalling

GABAB receptors (GABABRs) are an important building block in neural activity. Despite their widely hypothesized role in many basic neuronal functions and mental disorder symptomatology, there is a lack of biophysically and biochemically detailed models of these receptors and the way they mediate neuronal inhibition. Here, we developed a computational model for the activation of GABABRs and its effects on the activation of G protein-coupled inwardly rectifying potassium (GIRK) channels as well as inhibition of voltage-gated Ca2+ channels. To ensure the generality of our modelling framework, we fit our model to electrophysiological data including patch-clamp and intracellular recordings that described both pre- and postsynaptic effects of the receptor activation. We validated our model using data on postsynaptic effects of GABABRs on layer V pyramidal cell firing activity ex vivo and in vivo and confirmed the strong impact of dendritic GIRK channel activation on the neuron output. Finally, we reproduced and dissected the effects of a knockout of RGS7 (a G protein signalling protein) on CA1 pyramidal cell electrophysiological properties, which shows the potential of our model in generating insights on genetic manipulations of the GABABR system and related genetic variants. Our model thus provides a flexible tool for biochemically and biophysically detailed simulations of different aspects of GABABR activation that can reveal both foundational principles of neuronal dynamics and brain disorder-associated traits and treatment options.

neuroscience↗

bioRxiv2024

Modeling neuron-astrocyte interactions in neural networks using distributed simulation

Astrocytes engage in local interactions with neurons, synapses, other glial cell types, and the vasculature through intricate cellular and molecular processes, playing an important role in brain information processing, plasticity, cognition, and behavior. This study advances understanding of local interactions and self-organization of neuron-astrocyte networks and contributes to the broader investigation of their potential relationship with global activity regimes and overall brain function. We present six new contributions: (1) the development of a new model-building framework for neuron-astrocyte networks, (2) the introduction of connectivity concepts for tripartite neuron-astrocyte interactions in biological neural networks, (3) the design of a scalable architecture capable of simulating networks with up to a million cells, (4) a formalized description of neuron-astrocyte modeling that facilitates reproducibility, (5) the integration of experimental data to a greater extent than existing studies, and (6) simulation results demonstrating how neuron-astrocyte interactions drive the emergence of synchronization in local neuronal groups. Specifically, we develop a new technology for representing astrocytes and their interactions with neurons in distributed simulation code for large-scale spiking neuronal networks. This includes an astrocyte model with calcium dynamics, an extended neuron model receiving calcium-dependent signals from astrocytes, and a parallelized connectivity generation scheme for tripartite interactions between pre- and postsynaptic neurons and astrocytes. We verify the efficiency of our reference implementation through benchmarks varying in computing resources and network sizes. Our in silico experiments reproduce experimental data on astrocytic effects on neuronal synchronization, demonstrating that astrocytes consistently induce local synchronization in groups of neurons across various connectivity schemes and global activity regimes. By adjusting the strength of neuron-astrocyte interactions, we can switch the global activity regime from asynchronous to network-wide synchronization. This work represents an advancement in neuron-astrocyte modeling, introducing a novel framework that enables large-scale simulations of astrocytic influence on neuronal networks. Author summaryAstrocytes play an important role in regulating synapses, neuronal networks, and cognitive functions. However, models that include both neurons and astrocytes are underutilized compared to models with only neurons in theoretical and computational studies. We address this issue by developing theoretical concepts for representing astrocytic connectivity and interactions and provide a reference implementation supporting distributed parallel computing in the spiking neural network simulator NEST. Using these capabilities, we show how astrocytes help to synchronize neural networks under various connection patterns and activity levels. The new technology makes it easier to include astrocytes in simulations of neural systems, promoting the construction of more realistic, relevant, and reproducible models.

neuroscience↗