Denis Sobolev

Mr. Denis Sobolev

orcid

Research Focus & Metrics

Academic Career Length

4Years (2023-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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13 October 2023 in Cells
Verified
Journal Article
Open access
PDF file
ASAlexandra Sukhorukova
Alexandra Sukhorukova
DSDenis Sobolev
Denis Sobolev
IMIrina Milovskaya
Irina Milovskaya
VFVitaliy S. Fadeev
Vitaliy S. Fadeev
Irina Goldenkova-PavlovaIrina Goldenkova-Pavlova
Irina Goldenkova-Pavlova
ATAlexander A. Tyurin
Alexander A. Tyurin
The complexities of translational strategies make this stage of implementing genetic information one of the most challenging to comprehend and, simultaneously, perhaps the most engaging. It is evident that this diverse range of strategies results not only from a long evolutionary history, but is also of paramount importance for refining gene expression and metabolic modulation. This notion is particularly accurate for organisms that predominantly exhibit biochemical and physiological reactions with a lack of behavioural ones. Plants are a group of organisms that exhibit such features. Addressing unfavourable environmental conditions plays a pivotal role in plant physiology. This is particularly evident with the changing conditions of global warming and the irrevocable loss or depletion of natural ecosystems. In conceptual terms, the plant response to abiotic stress comprises a set of elaborate and intricate strategies. This is influenced by a range of abiotic factors that cause stressful conditions, and molecular genetic mechanisms that fine-tune metabolic pathways allowing the plant organism to overcome non-standard and non-optimal conditions. This review aims to focus on the current state of the art in the field of translational regulation in plants under abiotic stress conditions. Different regulatory elements and patterns are being assessed chronologically. We deem it important to focus on significant high-performance techniques for studying the genetic information dynamics during the translation phase.

Verified
Journal Article
Open access
PDF file
ASAlexandra Sukhorukova
Alexandra Sukhorukova
OPOlga S. Pavlenko
Olga S. Pavlenko
DSDenis Sobolev
Denis Sobolev
IDIlya S. Demyanchuk
Ilya S. Demyanchuk
VPValery Popov
Valery Popov
ATAlexander A. Tyurin
Alexander A. Tyurin
One of the unresolved questions in stress-response biology is how plants coordinate expression levels between the response and adaptation. In this work, we proposed a two-level analysis that examines both transcriptional and translational profiles of Solanum lycopersicum under conditions of short-term cold stress, hardening, and their combination. By combining polysome profiling and total transcriptome analysis, we revealed that expression under cold stress is not a simple linear process but a structurally distinct system with two coordinated regulation centres. Hardening triggers a strong transcriptional program focused on biogenesis, light signalling, and structural adaptations. In contrast, acute stress prompts selective translation of metabolic and defence proteins without prior transcriptional increase. Modular analysis (WGCNA) showed little overlap between transcriptional and translational networks, indicating functional differences between regulation levels. This work demonstrates that the cold response involves a strategic reallocation of resources between transcription and translation based on the type of signal. It bridges basic biology and applied breeding, providing targets promising for improving plant stress tolerance and advancing bioengineering of adaptive agriculture.

21 July 2023 in Preprints.org
Verified
Preprint
Open access
PDF file
ASAlexandra Sukhorukova
Alexandra Sukhorukova
DSDenis Sobolev
Denis Sobolev
IMIrina Milovskaya
Irina Milovskaya
VFVitaliy S. Fadeev
Vitaliy S. Fadeev
Irina Goldenkova-PavlovaIrina Goldenkova-Pavlova
Irina Goldenkova-Pavlova
ATAlexander A. Tyurin
Alexander A. Tyurin
The intricacies of translational strategies make this stage of the implementation of genetic information one of the most difficult to understand and, at the same time, perhaps the most interesting. It also becomes clear that all this variety of strategies is not just a consequence of a long evolutionary history but is of paramount importance for fine-tuning gene expression and metabolic modulation. This is especially true for those organisms that demonstrate predominantly biochemical and physiological reactions with a lack of behavioural ones. Plants are just such a group of organisms. Overcoming unfavourable environmental conditions occupies a key place in plant physiology. This is especially true with the changing conditions of global warming and the irretrievable loss or depletion of natural ecosystems. Conceptually, the response of plants to abiotic stress is a set of complex and intricate strategies. This is dictated both by a variety of abiotic factors that provoke stressful conditions and by a variety of molecular genetic mechanisms that make it possible to fine-tune the metabolic pathways through which the plant organism overcomes non-standard and non-optimal conditions. In the presented review, we tried to focus on the state-of-the-art in the field of translational regulation in plants under abiotic stress conditions. Various regulatory elements and patterns are considered in relative chronological order. We also considered it necessary to pay attention to key high-performance methods for studying the dynamics of genetic information at the stage of translation.

21 July 2025 in Preprints.org
Verified
Preprint
Open access
PDF file
ASAlexandra Sukhorukova
Alexandra Sukhorukova
OPOlga S. Pavlenko
Olga S. Pavlenko
DSDenis Sobolev
Denis Sobolev
IDIlya S. Demyanchuk
Ilya S. Demyanchuk
VPValery Popov
Valery Popov
ATAlexander A. Tyurin
Alexander A. Tyurin
One of the unresolved questions in stress-response biology remains the mechanism of coordination of expression levels in plants between the slow preparation phase and the rapid reactive response to stress exposure. In this work, we proposed a two-level analysis covering simultaneously transcriptional and translational profiles of Solanum lycopersicum under short-term cold stress, hardening and their combination. By combining polysome profiling and total transcriptome analysis, we revealed that expression under cold stress is not a linear chain but a structurally separated system with two coordinated centres of regulation. Hardening activates a robust transcriptional programme with a focus on biogenesis, light signalling and structural adaptations. In contrast, acute stress initiates selective translation of metabolic and defence proteins without prior enhancement of transcription. Modular analysis (WGCNA) showed low overlap between transcriptional and translational networks, indicating functional divergence between levels of regulation. In this work, we demonstrate that the cold response is a strategic reallocation of resources between expression levels depending on the type of signal. The work forms a bridge between basic biology and applied breeding, offering targets promising for targeted improvement of plant stress tolerance and further bioengineering of adaptive agrocultures.

31 May 2023 in Preprints.org
Verified
Preprint
Open access
PDF file
ASAlexandra Sukhorukova
Alexandra Sukhorukova
DSDenis Sobolev
Denis Sobolev
IMIrina Milovskaya
Irina Milovskaya
VFVitaliy S. Fadeev
Vitaliy S. Fadeev
Irina Goldenkova-PavlovaIrina Goldenkova-Pavlova
Irina Goldenkova-Pavlova
ATAlexander A. Tyurin
Alexander A. Tyurin
Stress is one of the important factors affecting the growth and development of plants. In recent years, a large body of data on transcriptional changes in response to stress in plants has been obtained. Despite the fact that the important role of the regulation of translation in response to stress has been proven in plants, knowledge in this area remains extremely scarce. In this review, we focused on mRNA translation in the cytoplasm of higher plants. Most of the current research on the effects of translation has been done in yeast and mammalian systems. Translation factors and mechanisms are mostly conserved among eukaryotes; however, some differences are known to exist among plants. A comprehensive understanding of the complex apparatus of translation and its regulation in plants is required. In this work, we have tried to update modern ideas about the regulation of translation under conditions of abiotic stress.