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Pocock, R.

Publications and source records attributed to Pocock, R..

At least 19 recordsLinked to original sources
bioRxiv2026

Loss of sphingomyelin synthase-1 does not cause egg retention or locomotion defects in Caenorhabditis elegans

Sphingomyelin is a critical sphingolipid found in plasma membranes of metazoa that provides structural and communicative functions. Sphingomyelin synthases are key enzymes that generate sphingomyelin but their precise functions in animal development and function are not fully understood. The Caenorhabditis elegans model encodes five sphingomyelin synthases (sms-1-5). Previously, egg-laying and locomotion phenotypes were observed in an sms-1(ok2399) deletion mutant. In this study, we attempted to replicate these findings to enable mechanistic dissection of sphingomyelin function. We indeed found that the sms-1(ok2399) mutant exhibited egg-laying and locomotion defects, however, we were unable to rescue this phenotype. Further, we generated two additional sms-1 deletion mutants (rp398 and rp399) and found that their egg-laying and locomotion behavior is not different to wild-type animals. We suggest that the sms-1(ok2399) contains a background mutation that causes behavioral deficits, and that SMS-1 loss does not overtly affect C. elegans egg-laying or locomotion.

genetics↗
bioRxiv2025

Gas-sensing neurons prime mitochondrial fitness to offset metabolic stress

Animals integrate environmental and internal cues to maintain homeostasis and health. The mitochondrial stress response is an essential cytoprotective mechanism, and priming its activation provides a survival advantage. Here, we show that the Caenorhabditis elegans receptor guanylyl cyclase GCY-9 regulates neuropeptide signalling from carbon dioxide sensing neurons to govern a non-canonical mitochondrial stress response in the intestine. This stress response induces atypical mitochondrial chaperone transcription, confers mitochondrial stress resistance, and increases mitochondrial membrane potential and respiration. GCY-9 loss disrupts pathogen avoidance, leading to indiscriminate feeding. We show that starvation decreases GCY-9 expression and propose that the resultant cytoprotective program is launched to offset risks associated with this behaviour. Thus, environmental sensing by peripheral neurons can pre-emptively enhance systemic mitochondrial function in response to metabolic uncertainty. One-Sentence SummaryProtecting mitochondria by integrating environmental signals

neuroscience↗
bioRxiv2025

Mediator-29 Limits Caenorhabditis elegans Fecundity

Mediator is an evolutionarily conserved multiprotein complex that acts as a critical coregulator of RNA polymerase II-mediated transcription. While core Mediator components are broadly required for transcription, others govern specific regulatory modules and signalling pathways. Here, we investigated the function of MDT-29/MED29 in the Caenorhabditis elegans germ line. We found that endogenously-tagged MDT-29 is ubiquitously expressed and concentrated in discrete foci within germ cell nuclei. Functionally, depleting MDT-29 in the germ line during larval development boosted fecundity. We determined that the increase in progeny production was likely caused by a combination of an expanded germline stem cell pool and decreased germ cell apoptosis. Thus, MDT-29 may act to optimize specific gene expression programs to control distinct germ cell behaviors, providing flexibility to progeny production in certain environments.

developmental biology↗
bioRxiv2024

Tbc1d15 knockdown in vivo alleviates α-synuclein-induced neurotoxicity by promoting autophagy.

Parkinsons disease is a neurodegenerative disease, which is associated with accumulation of -synuclein protein aggregates and Lewy Body formation. These neurotoxic inclusions are especially harmful for dopamine-producing neurons in the substantia nigra of the brain. The cellular degradation system autophagy can reduce neurotoxicity caused by accumulated -synuclein, by targeting it for degradation. Previously, we demonstrated that human TBC1D15 inhibits autophagy in vitro, resulting in accumulation of neurotoxic protein aggregates. Conversely, lowering the TBC1D15 expression promotes autophagy and degradation of -synuclein and huntingtin proteins in various cell models. Here we show that knockdown of murine Tbc1d15 in vivo activates autophagy, reduces -synuclein-mediated neurotoxicity, and improves motor performance. Thus, targeting Tbc1d15 expression may be a therapeutic avenue for neurodegenerative diseases.

neuroscience↗
bioRxiv2024

Focal Deletions of a Promoter Tether Activate the IRX3 Oncogene in T Cell Acute Lymphoblastic Leukemia

Oncogenes can be activated in cis through multiple mechanisms including enhancer hijacking events and noncoding mutations that create enhancers or promoters de novo. These paradigms have helped parse somatic variation of noncoding cancer genomes, thereby providing a rationale to identify noncanonical mechanisms of gene activation. Here we describe a novel mechanism of oncogene activation whereby focal copy number loss of an intronic element within the FTO gene leads to aberrant expression of IRX3, an oncogene in T cell acute lymphoblastic leukemia (T-ALL). Loss of this CTCF bound element downstream to IRX3 (+224 kb) leads to enhancer hijack of an upstream developmentally active super-enhancer of the CRNDE long noncoding RNA (-644 kb). Unexpectedly, the CRNDE super-enhancer interacts with the IRX3 promoter with no transcriptional output until it is untethered from the FTO intronic site. We propose that promoter tethering of oncogenes to inert regions of the genome is a previously unappreciated biological mechanism preventing tumorigenesis.

cancer biology↗
bioRxiv2023

A matrisome atlas of germ cell development

The extracellular matrix (matrisome) provides chemical and mechanical cues to control the structure and function of cells and tissues. Yet, comprehensive understanding of how matrisome factors individually and collectively control cell and tissue behavior in vivo is lacking. Here, we systematically investigate the function of 443 conserved matrisome-coding genes in controlling germ cell behavior within a complex tissue - the Caenorhabditis elegans germline. Using high-content imaging, 3D reconstruction and cell behavior analysis of >3500 germlines and >7 million germ cells, we identify specific matrisome factors that regulate germline structure, protein distribution, germ cell cycle and fate, apoptosis, and oocyte health. These findings reveal matrisome networks acting autonomously and non-autonomously to coordinate germ cell behavior, providing new avenues to study and manipulate cell fates.

cell biology↗
bioRxiv2023

A neuro-intestinal circuit controls mitochondrial dynamics and stress resistance

Neurons coordinate inter-tissue protein homeostasis to systemically manage cytotoxic stress. Specific neuropeptidergic signals coordinate the systemic mitochondrial stress response (UPRmt), but whether chemical neurotransmitters also influence this process is unclear. Here, we show that gamma-aminobutyric acid (GABA) inhibits, and acetylcholine (ACh) promotes the UPRmt in the Caenorhabditis elegans intestine. GABA controls the UPRmt by regulating extra-synaptic ACh release through metabotropic GABAB receptors GBB-1/2. We find that elevated ACh levels in animals that are GABA-deficient or lack ACh-degradative enzymes induce the UPRmt through ACR-11, an intestinal nicotinic 7 receptor. This neuro-intestinal circuit is critical for nonautonomously regulating mitochondrial dynamics and organismal survival of oxidative stress. These findings establish chemical neurotransmission as a crucial regulatory layer for nervous system control of systemic protein homeostasis and stress responses. One-Sentence SummaryRegulation of mitochondrial health with neurotransmission.

neuroscience↗
bioRxiv2023

Nuclear Factor-Y is a Pervasive Regulator of Neuronal Gene Expression

Nervous system function relies on the establishment of complex gene expression programs that provide neuron-type-specific and core pan-neuronal features. These complementary regulatory paradigms are controlled by terminal selector and parallel-acting transcription factors (TFs), respectively. Here, we identify the Nuclear Factor Y (NF-Y) TF as a pervasive regulator of both neuron-type-specific and pan-neuronal gene expression. Mapping global NF-Y targets reveals direct binding to the cis-regulatory regions of pan-neuronal genes and terminal selector TFs. We show that NFYA-1 controls pan-neuronal gene expression directly through binding to CCAAT boxes in target gene promoters and indirectly by regulating the expression of terminal selector TFs. Further, we find that NFYA-1 regulation of neuronal gene expression is important for neuronal activity and motor function. Thus, our research sheds light on how global neuronal gene expression programs are buffered through direct and indirect regulatory mechanisms.

neuroscience↗
bioRxiv2022

Characterization of the Doublesex/MAB-3 transcription factor DMD-9 in Caenorhabditis elegans

DMD-9 is a Caenorhabditis elegans Doublesex/MAB-3 Domain transcription factor of unknown function. Single-cell transcriptomics revealed that dmd-9 is highly expressed in specific head sensory neurons, with lower levels detected in non-neuronal tissues (uterine cells and spermatheca). Here, we characterized endogenous dmd-9 expression and function in hermaphrodites and males to identify potential sexually dimorphic roles. In addition, we dissected the trans- and cis-regulatory mechanisms that control DMD-9 expression in neurons. Our results show that of the 22 DMD-9-expressing neuronal reporters we analyzed, only the neuropeptide-encoding flp-19 gene is cell-autonomously regulated by DMD-9. Further, we did not identify defects in behaviors mediated by DMD-9 expressing neurons in dmd-9 mutants. We found that dmd-9 expression in neurons is regulated by four neuronal fate regulatory TFs: ETS-5, EGL-13, CHE-1, and TTX-1. In conclusion, our study characterized the DMD-9 expression pattern and regulatory logic for its control. We found that, as with other DMD TFs, DMD-9 likely acts redundantly to control neuronal development and function.

developmental biology↗
bioRxiv2022

An intestinal sphingolipid promotes neuronal health across generations

Maternal diet and environment can influence the neuronal health of offspring. Here, we report that diet-induced intestinal sphingolipid biosynthesis reduces adult-onset neurodegeneration intergenerationally in Caenorhabditis elegans. Feeding C. elegans with ursolic acid (UA), a natural plant product, provides neuroprotection by enhancing maternal provisioning of sphingosine-1-phosphate (S1P) - a bioactive sphingolipid. S1P promotes neuronal health across generations by upregulating transcription of the acid ceramidase-1 (asah-1) gene in the intestine. Intergenerational intestine-to-oocyte S1P transfer is essential for promoting neuronal health and is dependent on the lipoprotein yolk receptor RME-2 (Receptor-Mediated Endocytosis-2). Spatially regulating sphingolipid biosynthesis is critical, as inappropriate asah-1 neuronal expression causes developmental axon outgrowth defects. Our results reveal that sphingolipid homeostasis impacts the development and intergenerational health of the nervous system. One-Sentence SummaryAn intestinal lipid prevents neurodegeneration across generations.

neuroscience↗
bioRxiv2022

Conditional degradation of UNC-31/CAPS enables spatiotemporal analysis of neuropeptide function

Neuropeptide release from dense-core vesicles in Caenorhabditis elegans is promoted by UNC-31, ortholog of the calcium-dependent activator protein for secretion (CAPS). Loss of UNC-31 causes multiple phenotypes in C. elegans including reduced motility, retention of late-stage eggs and reduction in evoked synaptic release. However, the ability to analyze UNC-31 function over discrete timescales and in specific neurons is lacking. Here, we generated and validated a tool to enable UNC-31 expression and spatiotemporal functional analysis. We show that endogenously tagged UNC-31 is expressed in major ganglia and nerve cords from late-embryonic stages through to adult. Using the auxin-inducible degradation system, we depleted UNC-31 post-embryonically from the nervous system and revealed defects in egg-laying, locomotion and vesicle release that were comparable to unc-31 null mutant animals. In addition, we found that depleting UNC-31 specifically from the BAG sensory neurons causes increased intestinal fat storage, highlighting the spatial sensitivity of this system. Together, this protein degradation tool may be used to facilitate studies of neuropeptide function at precise cellular and temporal scales. Significance statementAnimal behavior and physiology is controlled by neuropeptides that are released from specific neuronal sources. The ability to dissect discrete neuropeptide functions requires precise manipulation of neuropeptide release. We have developed and validated a tool that enables precise spatiotemporal regulation of neuropeptide release that will enable researchers to examine neuropeptide function at exceptional resolution.

neuroscience↗
bioRxiv2021

Functional Recovery of the Germ Line Following Splicing Collapse

Splicing introns from precursor-messenger RNA (pre-mRNA) transcripts is essential for translating functional proteins. Here, we report that the previously uncharacterized Caenorhabditis elegans protein MOG-7, acts as a pre-mRNA splicing factor. Depleting MOG-7 from the C. elegans germ line causes intron retention in the majority of germline-expressed genes, impeding the germ cell cycle, and causing defects in nuclear morphology, germ cell identity and sterility. Despite the deleterious consequences caused by MOG-7 loss, the adult germ line can functionally recover to produce viable and fertile progeny when MOG-7 is restored. Germline recovery is dependent on a burst of apoptosis that likely clears defective germ cells, and viable gametes generated from the proliferation of germ cells in the progenitor zone. Together, these findings reveal that MOG-7 is essential for germ cell development, and that the germ line is able to functionally recover after a collapse in RNA splicing.

developmental biology↗
bioRxiv2020

Atypical TGF-beta Signaling Controls Neuronal Guidance in Caenorhabditis elegans

Coordinated expression of cell adhesion and signaling molecules is crucial for brain development. Here, we report that the Caenorhabditis elegans transforming growth factor-beta (TGF-{beta}) type I receptor SMA-6 (small-6) acts independently of its cognate TGF-{beta} type II receptor DAF-4 (dauer formation-defective-4) to control neuronal guidance. SMA-6 directs neuronal development from the epidermis through interactions with three, orphan, TGF-{beta} ligands. Intracellular signaling downstream of SMA-6 limits expression of NLR-1, an essential Neurexin-like cell adhesion receptor, to enable neuronal guidance. Together, our data identify an atypical TGF-{beta}-mediated regulatory mechanism to ensure correct development of the nervous system.

developmental biology↗
bioRxiv2020

Notch-Directed Germ Cell Proliferation Is Mediated by Proteoglycan-Dependent Transcription

Notch receptors are essential membrane-bound regulators of cell proliferation and differentiation in metazoa. In the nematode Caenorhabditis elegans, correct expression of GLP-1 (germline proliferation-1), a germline-expressed Notch receptor, is important for germ cell maintenance. However, mechanisms that regulate GLP-1 expression are undefined. Here, we demonstrate that an AP-2 transcription factor (APTF-2) regulates GLP-1 expression through calcium-dependent binding to a conserved motif in the glp-1 promoter. Our data reveals that SDN-1 (syndecan-1), a transmembrane proteoglycan, regulates a TRP calcium channel in the soma to modulate the interaction between APTF-2 and glp-1 promoter - thus providing a potential communication nexus between the germline and its somatic environment to control germ cell fate decisions.

developmental biology↗
bioRxiv2020

Experimental investigation of Caenorhabditis elegans motility using micro-PIV

Caenorhabditis elegans is a microscopic nematode used extensively as a model organism in studies of neuromuscular function and neurodegenerative disorders. A mutation in mir-1 affects signalling at the neuromuscular junction. We investigate the effect of this mutation on the propulsive power exerted by nematodes as they grow in size with age. We compare the motility of wild-type and mir-1(gk276) mutant nematodes in a Newtonian fluid using a two-component, two dimensional (2C-2D) Digital Microscopic Particle Image Velocimetry ({micro}-PIV) technique. Beating amplitudes of the head and tail, the wavelength of undulatory waves and the swimming speed scale linearly with size in both the wild-type and mutant strains. The beating frequency is independent of size or position along the body. Differences in the magnitudes of these kinematic parameters between the two strains, however, grow systematically with age. The swimming speed scales linearly with the wave speed of the neuromuscular undulation in both nematode strains with a conserved ratio. The magnitude of mean power and mean local fluid circulation in the mutant is significantly lower compared to those of the wild-type animals of the same age. This indicates that a mutation in mir-1 adversely affects motility in C. elegans.

neuroscience↗
bioRxiv2020

Harmonization of L1CAM Expression Facilitates Axon Outgrowth and Guidance of a Motor Neuron

Brain development requires precise regulation of axon outgrowth, guidance and termination by multiple signaling and adhesion molecules. How the expression of these neurodevelopmental regulators is transcriptionally controlled is poorly understood. The Caenorhabditis elegans SMD motor neurons terminate axon outgrowth upon sexual maturity and partially retract their axons during early adulthood. Here we show that C-Terminal Binding Protein-1 (CTBP-1), a transcriptional corepressor, is required for correct SMD axonal development. Loss of CTBP-1 causes multiple defects in SMD axon development: premature outgrowth, defective guidance, delayed termination and absence of retraction. CTBP-1 controls SMD axon development by repressing the expression of SAX-7 - a L1 cell adhesion molecule (L1CAM). CTBP-1-regulated repression is crucial as deregulated SAX-7/L1CAM causes aberrant SMD axons. We found that axonal defects caused by SAX-7/L1CAM misexpression are dependent on a distinct L1CAM, called LAD-2, which itself plays a parallel role in SMD axon guidance. Our results reveal that harmonization of L1CAM expression controls the development and maturation of a single neuron.

developmental biology↗
bioRxiv2019

Diet-responsive Transcriptional Regulation of Insulin in a Single Neuron Controls Systemic Metabolism

To maintain metabolic homeostasis, the nervous system must adapt and respond to an ever-changing environment. Transcription factors are key drivers of this adaptation, eliciting gene expression changes that can alter neuronal activity. Here we show in Caenorhabditis elegans that the terminal selector transcription factor ETS-5 not only establishes the identity of the BAG sensory neurons, but is re-purposed to shape the functional output of the BAG neurons post-mitotically. We find that ETS-5 directly regulates the expression of INS-1, an insulin-like peptide, in the BAG sensory neurons. INS-1 expression in the BAG neurons, and not in other INS-1-expressing neurons, decreases intestinal lipid levels and promotes foraging behaviour. Using in vivo analysis, we show that elevated intestinal lipid stores, driven by a high glucose diet, downregulates ETS-5-driven expression of INS-1. Together, our data reveal an inter-tissue regulatory loop by which a single neuron can control systemic metabolism, and that the activity of this neuron is modulated by the metabolic state of the organism.

genetics↗