Biology subjects

McClellan, A.

Publications and source records attributed to McClellan, A..

5 recordsLinked to original sources

bioRxiv2026

Clathrin differentially adapts its trimerisation domain during mammalian evolution to traffic the insulin-responsive GLUT4 glucose transporter.

In humans, the CHC22 isoform of clathrin regulates glucose metabolism by trafficking the GLUT4 glucose transporter for intracellular storage in skeletal muscle and release following insulin signalling. Some vertebrate lineages have lost the gene encoding CHC22 but operate the same insulin-stimulated GLUT4 trafficking pathway. Here, we show that species lacking CHC22 exclusively produce an alternatively-spliced form of the universally expressed CHC17 clathrin isoform (CHC17-SAS) with a truncated C-terminus similar to CHC22, expressed predominantly in skeletal muscle. Through its trimerisation domain, CHC17-SAS binds the CHC22-specific adaptor SNX5 that enables CHC22's distinct intracellular function. The 2.3 [A] crystal structure of the CHC22 trimerisation domain demonstrates conservation of the core trimeric fold from CHC17 but differences in electrostatic surface charge that may account for their differential properties. Using GLUT4 translocation assays in HeLa cell models, we show that CHC17-SAS is a functional surrogate for CHC22. Identification of CHC17-SAS resolves the evolutionary conundrum posed by CHC22 absence in some vertebrate lineages, and reveals a common mechanism for mammalian GLUT4 trafficking.

cell biology↗

bioRxiv2026

Ultra-large targeted DNA integrations in primary human cells

Genetic engineering experiments and therapies are constrained by the size of DNA integrations into human cells genomes. Existing AAV, lentiviral, and non-viral methods rapidly decrease in integration efficiency beyond [~]5kb of sequence. Through systematic evaluation of non-viral DNA template formats, we identified circular ssDNA and dsDNA as capable of mediating >5kb integrations. Large circular DNA delivery efficiency and its impacts on cell viability and payload expression could be significantly improved with small DNA "helper" plasmids, mRNA-encoded nucleases, and sequence design optimizations. Collectively, these modifications enabled ultra-large--up to 10 kb DNA--integrations at >20% efficiency in primary human T cells at the TRAC locus and at >60% efficiency in human iPSCs at the AAVS1 locus. Finally, we demonstrate that GMP clinical-manufactured T cells with ultra-large integrations are functional in vitro and in vivo. Overall, we identified optimal template architectures, delivery modes, and sequence design rules for ultra-large DNA integrations in both research and clinical settings to accelerate basic genetic research and next-generation cellular therapies.

genetics↗

bioRxiv2025

A unified genetic perturbation language for human cellular programming

Evolution simultaneously and combinatorially explores complex genetic changes across perturbation classes, including gene knockouts, knockdowns, overexpression, and the creation of new genes from existing domains. Separate technologies are capable of genetic perturbations at scale in human cells, but these methods are largely mutually incompatible. Here we present CRISPR-All, a unified genetic perturbation language for programming of any major type of genetic perturbation simultaneously, in any combination, at genome scale, in primary human cells. This is enabled by a standardized molecular architecture for each major perturbation class, development of a functional syntax for combining arbitrary numbers of elements across classes, and linkage to unique single cell compatible barcodes. To facilitate use, CRISPR-All converts high level descriptions of desired complex genetic changes into a single DNA sequence that can rewire genomic programs within a cell. Using the CRISPR-All language allowed for head-to-head functional comparisons across perturbation types in a comprehensive analysis of all previously identified genetic enhancements of human CAR-T cells. Combining CRISPR-All programs with single cell RNA sequencing revealed a greater diversity of phenotypic states, including improved functional performance, only accessible through distinct perturbation classes. Finally, CRISPR-All combinatorial genome scale screening of up to four distinct perturbations simultaneously revealed additive functional improvements in human T cells accessible only through iterative multiplexing of modifications across perturbation classes. CRISPR-All enables exploration of a combinatorial genetic perturbation space, which may be impactful for biological and clinical applications.

genetics↗

bioRxiv2024

Identification of a global gene expression signature associated with the genetic risk of catastrophic fracture in iPSC-derived osteoblasts from Thoroughbred horses

Bone fractures are a significant problem in Thoroughbred racehorses. The risk of fracture is influenced by both genetic and environmental factors. To determine the biological processes that are affected in genetically susceptible horses, we utilised polygenic risk scoring to establish induced pluripotent stem cells (iPSCs) from horses at high and low genetic risk. RNA-sequencing on iPSC-derived osteoblasts revealed 112 genes that were significantly differentially expressed. 43 of these genes have known roles in bone, 27 are not yet annotated in the equine genome and 42 currently have no described role in bone. However, many of the proteins encoded by the known and unknown genes have reported interactions. Functional enrichment analyses revealed that the differentially expressed genes were overrepresented in processes regulating the extracellular matrix and pathways known to be involved in bone remodelling and bone diseases. Gene set enrichment analysis also detected numerous biological processes and pathways involved in glycolysis with the associated genes having a higher expression in the iPSC-osteoblasts from horses with low polygenic risk scores for fracture. Therefore, the differentially expressed genes may be relevant for maintaining bone homeostasis and contribute to fracture risk. A deeper understanding of the consequences of mis-regulation of these genes and the identification of the DNA variants which underpin their differential expression may reveal more about the molecular mechanisms which are involved in equine bone health and fracture risk.

genetics↗

bioRxiv2024

Non-viral Intron Knockins Enable Simplified and Flexible Targeting of Endogenous Genes

Targeting new genetic material to endogenous genes has opened diverse therapeutic and research applications, but current exon-based targeting methods have limited integration sites and are compatible only with complex or harsh selection methods. We present non-viral intron targeting, integrating large synthetic exons into endogenous introns to increase targeting flexibility and simplify selection of successfully edited cells. Engineered control of large synthetic exons splicing behavior further generalizes cell and gene therapy applications of non-viral intron knockins.

bioengineering↗