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Biology subjects

Wyles, M.

Publications and source records attributed to Wyles, M..

3 recordsLinked to original sources

Astrocyte dysfunction distinguishes monozygotic twin C9orf72 expansion carriers discordant for amyotrophic lateral sclerosis.

Hexanucleotide repeat expansions in C9orf72 are the most common genetic cause of amyotrophic lateral sclerosis, yet many carriers remain asymptomatic for decades or never develop disease. This incomplete penetrance suggests that phenoconversion from genetic susceptibility to symptomatic disease onset is governed by epigenetic, environmental and cell-intrinsic modifiers. Astrocytes are key mediators of non-cell-autonomous neurodegeneration in ALS, but whether they undergo disease-associated phenoconversion in C9orf72 expansion carriers remains unclear. We investigated astrocyte-associated mechanisms of phenoconversion using a unique C9orf72 pedigree comprising monozygotic twins discordant for ALS and their asymptomatic father. This enabled analysis across a continuum from non-penetrance to late-stage neurodegeneration while controlling for inherited genetic background. Notably, the unaffected twin exhibited hypermethylation of the expanded C9orf72 allele, identifying an epigenetic correlate of non-penetrance. To define symptomatic and asymptomatic-associated astrocyte states, fibroblasts from this pedigree were directly reprogrammed into astrocytes and subjected to molecular, functional, electrophysiological and translatome analyses. Astrocytes derived from symptomatic ALS individuals were found to exhibit astrocyte-mediated toxicity towards motor neurons, canonical C9orf72 molecular pathology and connexin-related membrane dysfunction. Specifically, RNA foci and dipeptide repeat protein burden peaked in astrocytes obtained early in disease in the symptomatic twin and declined in astrocytes derived from samples obtained at advanced disease stages, whereas motor neuron toxicity increased progressively, demonstrating a dissociation between aggregate burden and functional neurotoxicity. In contrast, connexin-mediated electrophysiological dysfunction emerged with symptomatic disease and closely tracked with maximal toxicity. Translatome profiling revealed early global translational repression and impaired proteostasis in symptomatic astrocytes, whereas unaffected and non-penetrant C9-carriers retained enrichment of protein homeostasis pathways. These findings define distinct astrocyte states associated with asymptomatic, early symptomatic and late-stage disease. Notably, the affected twin reported substantially higher lifetime strenuous physical activity compared to the unaffected twin, consistent with a potential role for sustained exercise-related stress in accelerating disease onset in genetically susceptible individuals. Experimentally modelling increased stress induced aberrant upregulation of connexin-mediated currents in C9orf72 astrocytes, including in asymptomatic carriers, indicating that physiological stress can unmask latent astrocyte-intrinsic vulnerability and precipitate dysfunction in cellular homeostasis. Together, these findings redefine phenoconversion in C9orf72-associated amyotrophic lateral sclerosis to be associated with a significant upregulation of astrocyte toxicity, failure of resilience and demonstrate that the astrocyte disease state can be potentially induced by external stressors.

neuroscience↗

Generation of C9orf72h370 mice, an intron 1 humanised C9orf72 repeat-expansion knock-in model

An autosomal dominant GGGGCC repeat expansion in intron 1 of the C9orf72 gene is the most common genetic cause of both amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). Here, we set out to engineer a gene targeted mouse model harbouring a pathogenic length humanised C9orf72 repeat expansion allele, in order to model pathological mechanisms in a physiological context. In human disease, pathogenic repeats typically range from the hundreds to thousands of units in length, representing a considerable challenge for cellular and in vivo model generation given the instability of GC rich and repetitive DNA sequences during molecular cloning. To overcome this challenge, we developed new methodology to synthetically and iteratively build pure GGGGCC repeats within a linear vector system, which we then seamlessly and scarlessly embedded within the native human genomic sequence. This created a gene targeting DNA vector for homologous recombination of the human sequence in mouse embryonic stem cells. We used this novel targeting vector to generate a new gene targeted mouse allele, C9orf72h370, that for the first time has mouse C9orf72 intron 1 scarlessly replaced with human intron 1 including a pure (GGGGCC)370 hexanucleotide repeat expansion. We confirm that the mouse model expresses human intron 1-derived RNA and produces dipeptide repeat proteins derived from the GGGGCC repeat expansion. We now provide this model as a new freely available resource for the field. In addition, we demonstrate the utility of our cloning method for engineering diverse repeat expansion sequences for modelling other disorders, such as Fragile X Syndrome.

molecular biology↗

periscope: sub-genomic RNA identification in SARS-CoV-2 ARTIC Network Nanopore Sequencing Data

We have developed periscope, a tool for the detection and quantification of sub-genomic RNA (sgRNA) in SARS-CoV-2 genomic sequence data. The translation of the SARS-CoV-2 RNA genome for most open reading frames (ORFs) occurs via RNA intermediates termed "sub-genomic RNAs". sgRNAs are produced through discontinuous transcription which relies on homology between transcription regulatory sequences (TRS-B) upstream of the ORF start codons and that of the TRS-L which is located in the 5 UTR. TRS-L is immediately preceded by a leader sequence. This leader sequence is therefore found at the 5 end of all sgRNA. We applied periscope to 1,155 SARS-CoV-2 genomes from Sheffield, UK and validated our findings using orthogonal datasets and in vitro cell systems. Using a simple local alignment to detect reads which contain the leader sequence we were able to identify and quantify reads arising from canonical and non-canonical sgRNA. We were able to detect all canonical sgRNAs at expected abundances, with the exception of ORF10. A number of recurrent non-canonical sgRNAs are detected. We show that the results are reproducible using technical replicates and determine the optimum number of reads for sgRNA analysis. In VeroE6 ACE2+/- cell lines, periscope can detect the changes in the kinetics of sgRNA in orthogonal sequencing datasets. Finally, variants found in genomic RNA are transmitted to sgRNAs with high fidelity in most cases. This tool can be applied to all sequenced COVID-19 samples worldwide to provide comprehensive analysis of SARS-CoV-2 sgRNA.

bioinformatics↗