Biology subjects

Belevich, I.

Publications and source records attributed to Belevich, I..

8 recordsLinked to original sources

bioRxiv2025

Dispersal behavior rather than dispersal morphology creates social polymorphism in Formica ants

O_LIDispersal evolution and social evolution are interlinked. Dispersal is necessary for avoiding kin competition and inbreeding, but limited dispersal also allows beneficial social interactions with kin. In ants, a correlation between poor dispersal and complex societies, where a big proportion of queens are philopatric, is well documented, but the underlying causal mechanisms are not clear. C_LIO_LIIn this study we investigate the dispersal ability of six Formica species that vary in their colony queen number and nest founding mode, from three different subgenera. Investigating resource allocation in the bodies of young queens and males allows us to analyze the evolutionary causalities between dispersal ability and social organization. We measured the body ratios including wing-muscle ratio; glycogen, triglyceride and protein resources with colorimetric assays; and microscopic wing muscle structures with transmission electron microscopy, with an overall sample size of 1515 individual males and queens. C_LIO_LIOur results suggest that the physical condition of individuals does not strongly correlate with the dispersal patterns of the species, contrary to assumptions based on earlier studies in both ants and other insects. There was still a minor effect of social organization on male wing-muscle ratio, which is an interesting case of sexual coevolution of dispersal traits: it is likely that the queen philopatric behavior is reflected in male behavior and consequently in male morphology - even when our overall results support the hypothesis that ant dispersal is male biased regardless of social organization. Further, our intraspecific analyses in two of the six species reveal different patterns in their flight abilities in connection to their social organization, further pointing towards a mismatch between dispersal behavior and ability. C_LIO_LIIn Formica queens, philopatry seems to be a behavioral trait of the individuals rather than a consequence of colony-level resource allocation into dispersal ability, pointing towards a "behavior first" evolutionary route. The queens may selfishly choose not to disperse even when their society provides them with the resources for it. This raises new questions about conflicts over dispersal in these highly social systems. C_LI

evolutionary biology↗

bioRxiv2023

Progression of herpesvirus infection remodels mitochondrial organization and metabolism

Viruses target mitochondria to promote their replication, and infection-induced stress during the progression of infection leads to the regulation of antiviral defenses and mitochondrial metabolism which are opposed by counteracting viral factors. The precise structural and functional changes that underlie how mitochondria react to the infection remain largely unclear. Here we show extensive transcriptional remodeling of protein-encoding host genes involved in the respiratory chain, apoptosis, and structural organization of mitochondria as herpes simplex virus type 1 lytic infection proceeds from early to late stages of infection. High-resolution microscopy and interaction analyses unveiled infection-induced emergence of rough, thin, and elongated mitochondria relocalized at the perinuclear area, a significant increase in the number and clustering of ER-mitochondria contact sites, and thickening and shortening of mitochondrial cristae. Finally, metabolic analyses demonstrated that reactivation of ATP production is accompanied by increased mitochondrial Ca2+ content and proton leakage as the infection proceeds. Overall, the significant structural and functional changes in the mitochondria triggered by the viral invasion are tightly connected to the progression of the virus infection.

microbiology↗

bioRxiv2023

Golgi organization is a determinant of stem cell function in the small intestine

Cell-to-cell signalling between niche and stem cells regulates tissue regeneration. While the identity of many mediating factors is known, it is largely unknown whether stem cells optimize their receptiveness to niche signals according to the niche organization. Here, we show that Lgr5+ small intestinal stem cells (ISCs) regulate the morphology and orientation of their secretory apparatus to match the niche architecture, and to increase transport efficiency of niche signal receptors. Unlike the progenitor cells lacking lateral niche contacts, ISCs orient Golgi apparatus laterally towards Paneth cells of the epithelial niche, and divide Golgi into multiple stacks reflecting the number of Paneth cell contacts. Stem cells with a higher number of lateral Golgi transported Epidermal growth factor receptor (Egfr) with a higher efficiency than cells with one Golgi. The lateral Golgi orientation and enhanced Egfr transport required A-kinase anchor protein 9 (Akap9), and was necessary for normal regenerative capacity in vitro. Moreover, reduced Akap9 in aged ISCs renders ISCs insensitive to niche-dependent modulation of Golgi stack number and transport efficiency. Our results reveal stem cell-specific Golgi complex configuration that facilitates efficient niche signal reception and tissue regeneration, which is compromised in the aged epithelium.

cell biology↗

bioRxiv2020

DeepMIB: User-friendly and open-source software for training of deep learning network for biological image segmentation

Deep learning approaches are highly sought after solutions for coping with large amounts of collected datasets and are expected to become an essential part of imaging workflows. However, in most cases, deep learning is still considered as a complex task that only image analysis experts can master. DeepMIB addresses this problem and provides the community with a user-friendly and open-source tool to train convolutional neural networks and apply them to segment 2D and 3D light and electron microscopy datasets.

cell biology↗

bioRxiv2020

Computational tools for serial block EM reveal differences in plasmodesmata distributions and wall environments

Plasmodesmata are small channels that connect plant cells. While recent technological advances have facilitated the analysis of the ultrastructure of these channels, there are limitations to efficiently addressing their presence over an entire cellular interface. Here, we highlight the value of serial block electron microscopy for this purpose. We developed a computational pipeline to study plasmodesmata distributions and we detect presence/absence of plasmodesmata clusters, pit fields, at the phloem unloading interfaces of Arabidopsis thaliana roots. Pit fields can be visualised and quantified. As the wall environment of plasmodesmata is highly specialised we also designed a tool to extract the thickness of the extracellular matrix at and outside plasmodesmata positions. We show and quantify clear wall thinning around plasmodesmata with differences between genotypes, namely in the recently published plm-2 sphingolipid mutant. Our tools open new avenues for quantitative approaches in the analysis of symplastic trafficking. Sentence summaryWe developed computational tools for serial block electron microscopy datasets to extract information on the spatial distribution of plasmodesmata over an entire cellular interface and on the wall environment the plasmodesmata are in.

plant biology↗

bioRxiv2019

DeepACSON: Automated White Matter Segmentation

Automated segmentation techniques are essential to tracing the entirety of ultrastructures in large three-dimensional electron microscopy (3D-EM) images of the brain tissue. Current automated techniques use deep convolutional neural networks (DCNNs) and rely on high-contrast cellular membranes to trace a small number of neuronal processes in very high-resolution EM datasets. We developed DeepACSON to segment large field-of-view, low-resolution 3D-EM datasets of white matter where tens of thousands of myelinated axons traverse the tissue. DeepACSON performs DCNN-based semantic segmentation and shape decomposition-based instance segmentation. With its top-down design, DeepACSON manages to account for severe membrane discontinuities inescapable with the low-resolution imaging. In particular, the instance segmentation of DeepACSON uses the tubularity of myelinated axons, decomposing an under-segmented myelinated axon into its constituent axons. We applied DeepACSON to ten serial block-face scanning electron microscopy datasets of rats after sham-operation or traumatic brain injury, segmenting hundreds of thousands of long-span myelinated axons, thousands of cell nuclei, and millions of mitochondria with excellent evaluation scores. DeepACSON quantified the morphology and spatial aspects of white matter ultrastructures, capturing nanoscopic morphological alterations five months after the injury.

neuroscience↗

bioRxiv2019

Dynamic-ultrastructural cell volume (3D) correlative microscopy facilitated by intracellular fluorescent nanodiamonds as multi-modal probes

Three-dimensional correlative light and electron microscopy (3D CLEM) are attaining popularity as a potential technique to explore the functional aspects of a cell together with high-resolution ultrastructural details across the cell volume. In order to perform such a 3D CLEM experiment, there is an imperative requirement for multi-modal probes that are both fluorescent and electron-dense. These multi-modal probes will serve as landmarks in matching up the large full cell volume datasets acquired by different imaging modalities. Fluorescent nanodiamonds (FNDs) are a unique nanosized, fluorescent, and electron-dense material from the nanocarbon family. We hereby propose a novel and straightforward method for executing 3D CLEM using FNDs as multi-modal landmarks. We demonstrate that FNDs is biocompatible and easily identified both in living cell fluorescence imaging and in serial block-face scanning electron microscopy (SB-EM). We illustrate the 3D CLEM method by registering multi-modal datasets.

cell biology↗

bioRxiv2017

3D Axonal Morphometry of White Matter

Axonal structure underlies white matter functionality and plays a major role in brain connectivity. The current literature on the axonal structure is based on the analysis of two-dimensional (2D) cross-sections, which, as we demonstrate, is precarious. To be able to quantify three-dimensional (3D) axonal morphology, we developed a novel pipeline for automated 3D segmentation and morphometric analysis (ACSON) of the white matter ultrastructure. The automated pipeline eliminates the need for time-consuming manual segmentation of 3D datasets. ACSON segments myelin, myelinated and unmyelinated axons, mitochondria, cells and vacuoles, and analyzes the morphology of axons. We applied the pipeline to serial block-face scanning electron microscopy images of the corpus callosum of sham-operated (n = 2) and brain injured (n = 3) rats 5 months after the injury. The 3D morphometry showed that axonal cross-sections were elliptic rather than spherical, and their diameter varied substantially along axons. It also showed a significant reduction in the axonal diameter of the ipsilateral corpus callosum of rats 5 months after brain injury, indicating ongoing axonal alterations even at this chronic time-point.

neuroscience↗