SARS-Cov2 seasonality and adaptation are driven by solar activity. DOI Creative Commons
Octavio Gonzalez-Lugo

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 22, 2023

Abstract Since its isolation, SARS-Cov2 showed a high mutation rate hindering the ability to properly characterize it. Also as consequence of size, traditional sequence analysis methods are computationally constrained. Nonetheless, machine learning technologies and particularly deep offer viable scalable solution analysis. Applying variational autoencoders (VAEs), special kind neural network used for unsupervised learning, custom genomic representations cluster genomes by similarity. The resulting learned representation sorts sunshine duration (SD) change (SDRC) other solar-derived features. transition between clusters is characterized changes in viral genome size. Different deletions can be found throughout genome. Deletions might behave an internal clock inside Or adaptation mechanism seasonal variations solar radiation. As follows SDRC COVID-19 cases could also follow same pattern. However, spherical geometry our planet adds confounding variable Spherical correction dynamic fractional differentiation SD synchronizes into single period. This results general coordinate system that shows seasonality disease allows us analyze impact environmental Atmospheric affect radiation such ozone column cloudiness gradients correlation with cases. Analyzing composition (amount each specific nucleotide) time series displays attractor-like behavior under different scales. Oscillations explain efficacy antiviral treatments through pandemic. To further expand prediction capability model set features added targets supervised task. Allowing correlate composition. Genome sorting obtained two-dimensional appears only one dimension encodes temporal variable. show interaction host or particular tissue virus. VAE modified fit predator-prey using observations model. Retrieved dynamics transitory phase similar incubation time. characterization needed accurately interpret those results. Under system, mutations adaptations regular deterministic If result means copy codon usage bias(CUB) it likely expression compositionally genes. Selection highly transcripts isolation genes whose dysregulation matches some symptoms reported post-acute sequelae long Covid. Also, regulate circadian rhythm expressed at periods prevalence. Copying optimizing towards host's CUB will increase probability virus significant fragment protein leading autoimmunity. Dysregulation solar-based regulation variability random-like post acute phase. Further development techniques help better understand pathogenic organisms.

Language: Английский

NME6: ribonucleotide salvage sustains mitochondrial transcription DOI
Paulina H. Wanrooij, Andrei Chabes

The EMBO Journal, Journal Year: 2023, Volume and Issue: 42(18)

Published: Aug. 7, 2023

Language: Английский

Citations

2
Mitochondrial double-stranded RNA homeostasis depends on cell-cycle progression DOI Creative Commons

Vanessa Xavier,

Silvia Martinelli, Ryan Corbyn

et al.

Life Science Alliance, Journal Year: 2024, Volume and Issue: 7(11), P. e202402764 - e202402764

Published: Aug. 29, 2024

Mitochondrial gene expression is a compartmentalised process essential for metabolic function. The replication and transcription of mitochondrial DNA (mtDNA) take place at nucleoids, whereas the subsequent processing maturation RNA (mtRNA) mitoribosome assembly are localised to granules. bidirectional circular mtDNA can lead hybridisation polycistronic transcripts formation immunogenic double-stranded (mt-dsRNA). However, mechanisms that regulate mt-dsRNA localisation homeostasis largely unknown. With super-resolution microscopy, we show overlaps with core associated proteins granules but not nucleoids. Mt-dsRNA foci accumulate upon stimulation cell proliferation their abundance depends on ribonucleotide supply by nucleoside diphosphate kinase, NME6. Consequently, profuse in cultured cancer cells malignant human tumour biopsies. Our results establish new link between nucleic acid homeostasis.

Language: Английский

Citations

0
Mitochondrial NME6 Influences Basic Cellular Processes in Tumor Cells In Vitro DOI Open Access
Bastien Lucien Jean Proust, Anđela Horvat, Ana Tadijan

et al.

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(17), P. 9580 - 9580

Published: Sept. 4, 2024

NME6 belongs to the family of nucleoside diphosphate kinase enzymes, whose major role is transfer terminal phosphate from NTPs, mostly ATP, other (d)NDPs via a high-energy intermediate. Beside this basic enzymatic activity, family, comprising 10 genes/proteins in humans, executes number diverse biochemical/biological functions cell. A few previous studies have reported that resides mitochondria and influences oxidative phosphorylation while interacting with RCC1L, GTPase involved mitochondrial ribosome assembly translation. Considering multifunctional NME members, goal present study was assess influence overexpression or silencing on fundamental cellular events MDA-MB-231T metastatic breast cancer cells. Using flow cytometry, Western blotting, wound-healing assay, we demonstrated reduces cell migration alters expression EMT (epithelial–mesenchymal transition) markers. In addition, cycle distribution exclusively upon DNA damage impacts MAPK/ERK signaling pathway, it has no effect apoptosis. To conclude, our results demonstrate different processes, providing solid basis for future, more precise investigations its role.

Language: Английский

Citations

0
Therapeutic potential of Parkin and its regulation in Parkinson’s disease DOI

Narukkottil Safreena,

Indu R. Nair, Goutam Chandra

et al.

Biochemical Pharmacology, Journal Year: 2024, Volume and Issue: 230, P. 116600 - 116600

Published: Nov. 3, 2024

Language: Английский

Citations

0
SARS-Cov2 seasonality and adaptation are driven by solar activity. DOI Creative Commons
Octavio Gonzalez-Lugo

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: June 26, 2023

Abstract Since its isolation in Wuhan SARS-Cov2 showed a high mutation rate hindering the ability to properly characterize. Also as consequence of size, traditional sequence analysis methods were computationally constrained. However, applying variational autoencoders (VAEs) custom representations results series clusters sorted by sunshine duration (SD) change (SDRC) and other solar-derived features. The transition between is characterized changes viral genome apparent deletions can be found throughout genome. This might behave an internal clock inside SDRC-derived features synchronize COVID-19 cases into single period. Both solar correlate with pointing towards solar-dependent seasonality. Atmospheric that affect radiation also correlation cases. Analyzing composition time displays attractor-like behavior under different scales. While clustering them environmental conditions shows similar pattern one VAE models. Further development techniques will help us better understand seasonality adaptation pathogenic organisms.

Language: Английский

Citations

0
SARS-Cov2 seasonality and adaptation are driven by solar activity. DOI Creative Commons
Octavio Gonzalez-Lugo

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 22, 2023

Abstract Since its isolation, SARS-Cov2 showed a high mutation rate hindering the ability to properly characterize it. Also as consequence of size, traditional sequence analysis methods are computationally constrained. Nonetheless, machine learning technologies and particularly deep offer viable scalable solution analysis. Applying variational autoencoders (VAEs), special kind neural network used for unsupervised learning, custom genomic representations cluster genomes by similarity. The resulting learned representation sorts sunshine duration (SD) change (SDRC) other solar-derived features. transition between clusters is characterized changes in viral genome size. Different deletions can be found throughout genome. Deletions might behave an internal clock inside Or adaptation mechanism seasonal variations solar radiation. As follows SDRC COVID-19 cases could also follow same pattern. However, spherical geometry our planet adds confounding variable Spherical correction dynamic fractional differentiation SD synchronizes into single period. This results general coordinate system that shows seasonality disease allows us analyze impact environmental Atmospheric affect radiation such ozone column cloudiness gradients correlation with cases. Analyzing composition (amount each specific nucleotide) time series displays attractor-like behavior under different scales. Oscillations explain efficacy antiviral treatments through pandemic. To further expand prediction capability model set features added targets supervised task. Allowing correlate composition. Genome sorting obtained two-dimensional appears only one dimension encodes temporal variable. show interaction host or particular tissue virus. VAE modified fit predator-prey using observations model. Retrieved dynamics transitory phase similar incubation time. characterization needed accurately interpret those results. Under system, mutations adaptations regular deterministic If result means copy codon usage bias(CUB) it likely expression compositionally genes. Selection highly transcripts isolation genes whose dysregulation matches some symptoms reported post-acute sequelae long Covid. Also, regulate circadian rhythm expressed at periods prevalence. Copying optimizing towards host's CUB will increase probability virus significant fragment protein leading autoimmunity. Dysregulation solar-based regulation variability random-like post acute phase. Further development techniques help better understand pathogenic organisms.

Language: Английский

Citations

0