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Chen, Z.-R.

Publications and source records attributed to Chen, Z.-R..

2 recordsLinked to original sources

The Interaction of UBR4, LRP1, and OPHN1 in Refractory Epilepsy: Drosophila Model to Investigate the Oligogenic Effect on Epilepsy

Refractory epilepsy is an intractable neurological disorder that is currently difficult to achieve effective pharmacological control in clinical practice and can result in poor quality of life as well as increased mortality. Genetic factors are important causes of epilepsy, especially idiopathic epilepsy. In the clinical gene sequencing work, we identified one refractory epileptic patient who carried three epileptogenic candidate genes: UBR4, LRP1, and OPHN1 variants. To clarify the epileptogenicity and interactions of UBR4, LRP1, and OPHN1 variants, as well as explore the role of each mutant gene in eliciting epilepsy, we established single-knockdown, double-knockdown, and triple-knockdown Drosophila models by suppressing the gene expression of these three epileptogenic candidate genes. After conducting behavioral testing for epilepsy in the seven Drosophila knockdown models, regression equations illustrating the causal connection between genotype and phenotype were developed. The mutations of the three epileptogenic candidate genes: UBR4, LRP1, and OPHN1, were proved to be epileptogenic at the animal level both in seizure rates and logistic regression results. Moreover, significant negative interactions in UBR4-OPHN1 KD and LRP1-OPHN1 KD were found in the trigenic KD system as well as the UBR4-OPHN1 and LRP1-OPHN1 digenic KD system according to the logistic regression analysis result. However, despite the existence of negative interaction, three groups of digenic KD flies and one group of trigenic KD flies presented higher seizure rates than that of the corresponding monogenic KD flies. LRP1-OPHN1 KD together with its negative interaction was regarded as the main causative factors for seizure in the UBR4-LRP1-OPHN1 KD.

neuroscience↗

The linear correlation between genome size and the size of the non-transcribing region

BackgroundThe genome sizes of organisms vary widely (C-value paradox). There are non-transcribing regions in the genome that neither encode proteins nor RNA entities. There are several hypotheses about the function of these regions: one suggests that they are unannotated functional areas, while another views them as genomic isolation zones that reduce mutations in coding regions. MethodStatistical analysis was conducted on the transcribing regions (including areas annotated as genes and transcribed pseudogenes) and non-transcribing regions, protein-coding regions (Coding sequence, CDS), and genome sizes using annotation files from 63,866 species genomes in the NCBI RefSeq database. ResultsThere is a significant linear relationship between the size of non-transcribing genomic regions and overall genome size across species, with varying proportional coefficients among different phyla (realms for viruses). As genome size increases, the proportion of non-transcribing regions gradually rises, eventually approaching a linear proportional limit, resembling one arm of hyperbolic functions. Eukaryotes show high linear correlation, with the highest in Streptophyta and the lowest in Apicomplexa. In eukaryotes, the size of the coding region increases with genome size, but the increasing trend diminishes (proportionally decreases). In non-eukaryotes, the size of the coding region maintains a linear relationship with genome size. ConclusionThe size of non-transcribing region in species may be subject to some strict quantitative control mechanism, showing that genome and non-transcribing genome sizes increase proportionally with the expansion of the transcribing genome, indicating a strict balance between expansion and energy conservation. The proportion of non-transcribed genomes in eukaryotes is conservative (although the sequences are not), and the presence of non-transcribing genomes has significant implications for the evolution or survival of species. Thus, I propose a new hypothesis about the non-transcribing genome, that it is a space for generating new genes from scratch, and the different proportional coefficients among phyla are due to their different positions in energy transfer. Graphic Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=104 SRC="FIGDIR/small/613789v1_ufig1.gif" ALT="Figure 1"> View larger version (28K): org.highwire.dtl.DTLVardef@dc3e88org.highwire.dtl.DTLVardef@18d70e8org.highwire.dtl.DTLVardef@efb92corg.highwire.dtl.DTLVardef@66068b_HPS_FORMAT_FIGEXP M_FIG C_FIG

genomics↗