Biology subjects

Jackson, A. C.

Publications and source records attributed to Jackson, A. C..

13 recordsLinked to original sources

bioRxiv2026

Intersectional genetic targeting of molecularly distinct melanin-concentrating hormone neuron subpopulations reveals distinct and overlapping subcircuit architecture

The lateral hypothalamic area (LHA) coordinates crucial and innate behaviors through heterogeneous yet poorly understood neuronal populations and circuits. Neurons that produce melanin-concentrating hormone (MCH; encoded by the Pmch gene) are primarily localized in the LHA and contribute to feeding, sleep-wake regulation, memory, and reward-associated behaviors. Building on foundational anatomical studies, our single-cell transcriptomic analysis of the LHA identified markers distinguishing at least two transcriptionally distinct MCH subpopulations. These subpopulations are distinguished by the selective enrichment of the Tacr3 and Cartpt transcripts, with each comprising approximately half of the total MCH population. However, these subpopulations remain poorly understood owing to limited genetic targeting tools. We hypothesized that MCH neurons operate through functionally distinct, parallel subcircuits that exhibit unique neuroanatomical projections. In this study, we leveraged Pmch and Tacr3 expression to intersectionally dissociate these neurons into Type I MCH (Pmch+/Tacr3+) and Type II MCH (Pmch+/Tacr3-) subpopulations. We first validated a Tacr3-Flpo mouse line for the genetic targeting of the Type I MCH subpopulation. We then generated an intersectional Type I MCH neuron reporter line to visualize Type I axonal projections. In parallel, we injected a dual recombinase mouse line with the intersectional genetic targeting viruses, Conditional Viral Expression by Ribozyme Guided Degradation (ConVERGD), and identified overlapping and distinct projections by Type I and Type II MCH neurons using fluorescence microscopy, super-resolution imaging, and high-spatial resolution fiber mapping. Overall, these data establish the first subpopulation-resolved anatomical framework for molecularly distinct Type I and Type II MCH subcircuits, thus establishing a foundation for future circuit-level functional studies.

neuroscience↗

bioRxiv2026

Spatial organization of voltage-gated ion channel expression across molecularly defined neuronal populations in the mouse mammillary bodies

The mammillary bodies (MB) are a hypothalamic component of the limbic Papez circuit that plays a critical role in spatial and episodic memory in mammals. Degeneration of the MB occurs in disorders associated with cognitive impairment, including Korsakoff's syndrome and Alzheimer's disease, yet the molecular organization and intrinsic properties of MB neurons remain poorly understood. Recent single-cell RNA sequencing identified multiple transcriptionally distinct neuronal populations within the MB and suggested that they differentially express voltage-gated ion channels that regulate neuronal excitability. Here, we used fluorescence in situ hybridization (FISH) to define the anatomical organization of cluster-enriched molecular markers and determine the spatial distribution of transcripts encoding voltage-gated sodium (NaV), potassium (KV), and hyperpolarization-activated cyclic nucleotide-gated (HCN) channels among defined subregions of the mouse MB. We found that marker transcripts occupy characteristic but partially overlapping spatial domains that broadly correspond to classical anatomical subdivisions. In addition, several ion channel transcripts, including Scn1a, Scn2a, Kcnq2, Kcnq3, and Hcn1, exhibited distinct patterns of enrichment across molecularly defined neuronal populations and MB subregions. Multiplex FISH further revealed unexpected co-expression of Scn1a and Scn2a within Pvalb-enriched neuronal populations, while whole-cell recordings demonstrated distinct intrinsic firing properties of neurons in the lateral and medial mammillary nuclei. Together, these findings establish a molecular framework linking neuronal population identity with voltage-gated ion channel expression in the MB and provide a foundation for future studies investigating how cell type-specific differences in intrinsic excitability contribute to memory function and neurological disease.

neuroscience↗

bioRxiv2026

Lateral hypothalamic GABAergic projections to the dorsal pons and lateral preoptic area in feeding, predation, and reinforcement

Lateral hypothalamic GABAergic (LHAGABA) neurons regulate arousal, feeding, and reward-related behaviors, but how their downstream projections coordinate motivated behaviors across domains remains incompletely defined. Our histological analyses revealed that LHAGABA fibers were distributed across the dorsal pons (DP) subregions, including the peri-locus coeruleus, laterodorsal tegmentum, and Barringtons nucleus, and extend throughout the lateral preoptic area (LPO), thereby refining existing anatomical descriptions. We then used optogenetics to systematically compare the effects of activating LHAGABA somata and their projections to the DP and LPO across assays of feeding, non-food-directed gnawing, predatory behavior, real-time place preference, and operant self-stimulation. In sated mice, optogenetic activation of LHAGABA somata or their terminals in the DP or LPO increased caloric food intake, whereas non-caloric cellulose intake was minimally affected during terminal stimulation. Across conditions, activation increased gnawing and shredding of non-food objects while reducing inactivity. In cricket hunting, stimulation increased cricket killing and consumption relative to controls. Similarly, all stimulation conditions supported positive-valence and reinforcement-related responding, as indicated by real-time place preference and operant self-stimulation. Together, these results provide new functional evidence that activation of LHAGABA somata and projections to both the DP and LPO recruit largely overlapping behavioral responses across feeding, non-food behavior, predatory hunting, and reinforcement-related assays. These findings support a distributed hypothalamic output architecture in which major ascending and descending LHAGABA pathways contribute to a shared motivational repertoire rather than wholly discrete behavioral functions.

neuroscience↗

bioRxiv2026

Transcriptional plasticity of melanin-concentrating hormone neurons in the medial preoptic area of lactating mouse dams

The medial preoptic area (MPOA) is a central hub for maternal behavior, integrating hormonal and sensory signals to coordinate adaptive postpartum responses. Although melanin-concentrating hormone (MCH) neurons are well characterized in the lateral hypothalamus, their identity and functional engagement within MPOA circuits remain poorly defined. Here, through integrative reanalysis of a publicly available single-cell RNA sequencing dataset of the mouse MPOA (GSE295610), we identify two transcriptionally distinct Pmch-expressing neuronal populations. Both populations are GABAergic and emerge prominently during mid to late lactation. Lactation is characterized by significant upregulation of Pmch and coordinated enrichment of neuropeptidergic and hormone-responsive genes, including islet amyloid polypeptide (Iapp), prodynorphin (Pdyn), and prolactin receptor (Prlr). Independent single-cell gene expression profiling of FACS-isolated GAD67-GFP neurons from the MPOA further corroborated these findings, confirming the selective emergence of Pmch expression during lactation and its co-expression with neuropeptidergic and hormone-responsive genes. NeuroEstimator-based activity inference demonstrates increased predicted neuronal activity in lactating females, while pseudotime reconstruction reveals a lactation-associated transcriptional shift toward later trajectory states. hdWGCNA analysis identified gene co-expression modules significantly enriched during lactation. Regulatory network inference using SCENIC further revealed activation of activity-dependent transcriptional regulons, including cyclic AMP-responsive element-binding protein 3-like 1 (Creb3l1), early growth response 1 (Egr1), and FBJ osteosarcoma oncogene (Fos). These transcriptional programs converge on gene networks associated with synaptic plasticity, regulation of neurogenesis, and broader mechanisms of neuronal plasticity. Notably, these Pmch populations were not annotated in the original study, underscoring the power of systems-level reanalysis to uncover previously unrecognized components of maternal circuitry. Together, our findings provide single-cell evidence that MCH-expressing neurons in the MPOA undergo state-dependent transcriptional reorganization during lactation, suggesting a dynamic role for MCH signaling in postpartum neuroendocrine plasticity.

neuroscience↗

bioRxiv2026

Brain-wide mapping and synaptic localization of C1QL3 using a novel epitope-tagged knock-in mouse

Synapse formation and function are coordinated spatially and temporally by a host of synaptic proteins that regulate neuronal signaling, synapse specificity, and plasticity; many of which are implicated in neuropsychiatric disorders. Members of the C1q/TNF superfamily function as synaptic organizers, shaping synapse assembly and maintenance. Among them, C1QL3 plays a putative role in trans-synaptic adhesion and modulation of synaptic strength, but the lack of a reliable antibody to detect it has severely limited the ability to map its endogenous localization and study its biochemical properties. Here, we present a novel epitope-tagged knock-in mouse line (C1ql32HA), in which two hemagglutinin (HA) epitopes were inserted near the N-terminus of the endogenous C1QL3 protein. This model enables purification, detection, and subcellular localization of native C1QL3 protein (C1QL3-2HA) with high specificity, eliminating the need for overexpression or custom antibodies. We validated that C1ql32HA mice maintain normal mRNA expression, biochemical properties, and behavior. Using native PAGE, we determined the endogenous oligomeric state of C1QL3-2HA. Brain-wide light-sheet microscopy uncovered an expanded neuroanatomical map of C1QL3-2HA expression, including newly identified populations in cortical and subcortical regions as well as the retina. Dual immunohistochemistry confirmed cell type-specific expression patterns, and super-resolution STED microscopy localized C1QL3-2HA to hippocampal mossy fiber synapses, positioned between pre- and post-synaptic markers, supporting its hypothesized role in trans-synaptic complexes. This knock-in mouse line is a powerful tool for studying the anatomical, molecular, and synaptic biology of C1QL3 in all cellular/tissue contexts, enabling future studies into its potential roles in the nervous system and beyond.

neuroscience↗

bioRxiv2025

HypoAD: volumetric and single-cell analysis reveals changes in the human hypothalamus in aging and Alzheimer's disease

Alterations in metabolism, stress response, sleep, circadian rhythms, and neuroendocrine processes are key features of aging and neurodegeneration. These fundamental processes are regulated by the hypothalamus, yet how its functionally distinct subregions and cell types change during human aging and Alzheimers Disease (AD) remains largely unexplored. Here, we present HypoAD, a comprehensive atlas of the human hypothalamus in aging and AD, integrating high-resolution MRI from 202 individuals with single-nucleus RNA-seq (snRNA-seq) of 614,403 nuclei from young, AD, and age-matched non-dementia controls. Our analysis reveals that hypothalamic subregions governing metabolism, stress, and circadian rhythms are particularly vulnerable, exhibiting significant changes in both volumes and gene expression during aging and AD. At the molecular level, machine learning models identified the inflammatory response and regulators of circadian rhythms as key cellular predictors of AD. These signatures were reflected in specific cell types: microglia transitioned to a pro-inflammatory state, while inhibitory neurons within sleep-and circadian-regulating hypothalamic subregions showed the most profound transcriptional alterations, including disruptions in ligand-receptor interactions and G-protein-coupled receptor signaling. Together, HypoAD provides a high-resolution volumetric map and a comprehensive transcriptomic atlas of the human hypothalamus in aging and AD, linking lifestyle and behavioral changes to their underlying volumetric and molecular pathways. Additionally, HypoAD provides a framework to investigate hypothalamic dysfunction and establishes a roadmap for targeted interventions aimed at mitigating physiological disruptions to potentially slow disease progression.

neuroscience↗

bioRxiv2025

HCN channel currents underlie distinct neurophysiology of mediodorsal thalamus subnuclei

The mediodorsal thalamus (MD) is a hub coordinating cortical and subcortical brain regions to support executive and social/emotional functioning. MD can be subdivided into medial (M), central (C), and lateral (L) based on synaptic coupling, molecular identity, and physiology. Recently, we identified differential intrinsic properties between thalamocortical M and L neurons projecting to the medial prefrontal cortex (mPFC). L neurons projecting to mPFC showed increased hyperpolarization activated cyclic nucleotide gated (HCN) channel activity compared with M neurons, which caused L neurons to have lower cellular resistance and shorter time windows for integration of inputs. In addition to their role in synaptic integration, HCN channels are critical for thalamic rhythm generation. In this study, we used a combination of patch clamp electrophysiology and in situ hybridization to investigate how differences in HCN impact intrinsic oscillatory dynamics in M, C, and L neurons. We found that HCN current differed across MD subnuclei with C > L >> M. Clustering neurons based on HCN properties was sufficient to classify subnuclei with >95% accuracy, highlighting the differences in HCN function between subnuclei. Greater HCN activity in MD neurons was associated with decreased input resistance, decreased action potential firing, and higher resonant frequency. These findings provide an ionic basis for differences in cellular resonance across MD subnuclei, with implications for thalamic rhythm generation and information processing.

neuroscience↗

bioRxiv2025

Impacts of climate change on fonio millet: in-vitro seed germination and suitability modelling of an important indigenous West African crop

Seed germination is highly temperature sensitive. Climate change factors such as increasing temperatures are likely to have a harmful effect on agriculture, particularly after crop sowing. Better utilisation of indigenous, arid-resilient crops like fonio (Digitaria exilis) are a commonly proposed solution to improving food security. This study develops knowledge of fonio germination requirements and how these correspond to future climate conditions across West Africa. We use a combined approach; integrating seed germination experiments under a range of temperatures, and niche suitability modelling to investigate how cultivation of fonio will be impacted by climate change. We find that from 37 seed accessions collected across Guinea, Togo, Mali, and Burkina Faso, the ceiling temperature for germination is around 42{degrees}C, with an optimum temperature of 30-35{degrees}C - also noted from phenotypic observations. Drought trials show successful germination to beyond -1MPa. There is no obvious difference in response by accessions originating from either hotter or cooler climates. By comparing these temperature thresholds with future climate predictions, alongside a suitability modelling approach, we predict an average decline of 10% in the suitable area for fonio cultivation, especially affecting Senegal, Mali, and Burkina Faso. Newly suitable area is predicted to increase in Guinea, Ghana, Cote dIvoire, and Nigeria by around 5%. These findings provide valuable insight for developing future dryland agriculture policies and prioritisation of resilient crops.

plant biology↗

bioRxiv2024

An engineered prodrug selectively suppresses β-lactam resistant bacteria in a mixed microbial setting

The rise of {beta}-lactam resistance necessitates new strategies to combat bacterial infections. We purposefully engineered the {beta}-lactam prodrug AcephPT to exploit {beta}-lactamase activity to selectively suppress resistant bacteria producing extended-spectrum-{beta}-lactamases (ESBLs). Selective targeting of resistant bacteria requires avoiding interaction with penicillin-binding proteins, the conventional targets of {beta}-lactam antibiotics, while maintaining recognition by ESBLs to activate AcephPT only in resistant cells. Computational approaches provide a rationale for structural modifications to the prodrug to achieve this biased activity. We show AcephPT selectively suppresses gram-negative ESBL-producing bacteria in clonal populations and in mixed microbial cultures, with effective selectivity for both lab strains and clinical isolates expressing ESBLs. Time-course NMR experiments confirm hydrolytic activation of AcephPT exclusively by ESBL-producing bacteria. In mixed microbial cultures, AcephPT suppresses proliferation of ESBL-producing strains while sustaining growth of {beta}-lactamase-non-producing bacteria, highlighting its potential to combat {beta}-lactam resistance while promoting antimicrobial stewardship. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=152 SRC="FIGDIR/small/606422v1_ufig1.gif" ALT="Figure 1"> View larger version (62K): org.highwire.dtl.DTLVardef@cd7f9aorg.highwire.dtl.DTLVardef@1747bc6org.highwire.dtl.DTLVardef@6a3419org.highwire.dtl.DTLVardef@825aa6_HPS_FORMAT_FIGEXP M_FIG C_FIG

microbiology↗

bioRxiv2022

Integrity of the minor spliceosome in the developing mouse hypothalamus determines neuronal subtype composition regulating energy balance.

While gene regulatory networks underlying hypothalamic development are being characterized, minor intron splicing remains unexplored. Here, we used Nkx2.1-Cre to ablate Rnu11, encoding the minor spliceosome-specific U11 snRNA, in the progenitors of the ventral diencephalon (VD), to study minor intron splicing in hypothalamic development and control of energy balance in mice. Loss of U11 resulted in aberrant minor intron splicing, mitotic stalling, apoptosis, and altered neurogenesis. Mutant mice exhibited gross dysgenesis of hypothalamic architecture, while single-cell RNA sequencing (scRNAseq) revealed aberrant composition of neuronal subtypes implicated in feeding and energy balance. Mutant weanlings failed to thrive, followed by rapid weight gain, resulting in obesity. Assessment of energy imbalance and pair-feeding demonstrated that hyperphagia in adult mutants initiates weight gain, and is compounded by metabolic dysfunction, ultimately resulting in obesity. Our findings suggest a key role of minor intron splicing in the developmental patterning of hypothalamic neuronal subtypes underlying energy balance.

neuroscience↗

bioRxiv2022

Identification of genetic loci in lettuce mediating quantitative resistance to fungal pathogens

Lactuca sativa L. (lettuce) is an important leafy vegetable crop grown and consumed globally. Chemicals are routinely used to control major pathogens, including the causal agents of grey mould (Botrytis cinerea) and lettuce drop (Sclerotinia sclerotiorum). With increasing prevalence of pathogen resistance to fungicides and environmental concerns, there is an urgent need to identify sources of genetic resistance to B. cinerea and S. sclerotiorum in lettuce. We demonstrated genetic variation for quantitative resistance to B. cinerea and S. sclerotiorum in a set of 97 diverse lettuce and wild relative accessions, and between the parents of lettuce mapping populations. Transcriptome profiling across multiple lettuce accessions enabled us to identify genes with expression correlated with resistance, predicting the importance of post-transcriptional gene regulation in the lettuce defence response. We identified five genetic loci influencing quantitative resistance in a F10 mapping population derived from a Lactuca serriola (wild relative) x lettuce cross, which each explained 5-10% of the variation. Differential gene expression analysis between the parent lines, and integration of data on correlation of gene expression and resistance in the diversity set, highlighted potential causal genes underlying the quantitative trait loci. Key MessageWe demonstrate genetic variation for quantitative resistance against important fungal pathogens in lettuce and its wild relatives, map loci conferring resistance and predict key molecular mechanisms using transcriptome profiling.

plant biology↗

bioRxiv2020

Cellular taxonomy and spatial organization of the ventral posterior hypothalamus reveals neuroanatomical parcellation of the mammillary bodies

The ventral posterior hypothalamus (VPH) is an anatomically complex brain region implicated in arousal, reproduction, energy balance and memory processing. However, neuronal cell type diversity within the VPH is poorly understood, an impediment to deconstructing the roles of distinct VPH circuits in physiology and behavior. To address this question, we employed a droplet-based single cell RNA sequencing (scRNA-seq) approach to systematically classify molecularly distinct cell types in the mouse VPH. Analysis of >16,000 single cells revealed 20 neuronal and 18 non-neuronal cell populations, defined by suites of discriminatory markers. We validated differentially expressed genes in a selection of neuronal populations through fluorescence in situ hybridization (FISH). Focusing on the mammillary bodies (MB), we discovered transcriptionally-distinct clusters that exhibit a surprising degree of segregation within neuroanatomical subdivisions of the MB, while genetically-defined MB cell types project topographically to the anterior thalamus. This single cell transcriptomic atlas of cell types in the VPH provides a detailed resource for interrogating the circuit-level mechanisms underlying the diverse functions of VPH circuits in health and disease.

neuroscience↗

bioRxiv2017

Pangenomic analysis reveals pathogen-specific regions and novel effector candidates in Fusarium oxysporum f.sp. cepae

A reference-quality assembly of Fusarium oxysporum f. sp. cepae (Foc), the causative agent of onion basal rot has been generated along with genomes of additional pathogenic and non-pathogenic isolates. Phylogenetic analysis confirmed a single origin of the Foc pathogenic lineage.\n\nGenome alignments with other F. oxysporum ff. spp. and non pathogens revealed high levels of syntenic conservation of core chromosomes but little synteny between lineage specific (LS) chromosomes. Four LS contigs in Foc totaling 3.9 Mb were designated as pathogen-specific (PS). A two-fold increase in segmental duplication events was observed between LS regions of the genome compared to within core regions or from LS regions to the core.\n\nRNA-seq expression studies identified candidate effectors expressed in planta, consisting of both known effector homologs and novel candidates. FTF1 and a subset of other transcription factors implicated in regulation of effector expression were found to be expressed in planta.

pathology↗