Biology subjects

Chapman, A.

Publications and source records attributed to Chapman, A..

12 recordsLinked to original sources

bioRxiv2026

Dorsomedial striatal Bmal1 deletion in medium spiny neurons alters EPSCs and dendritic morphology after chronic exposure to alcohol in female mice.

Circadian clock genes in the striatum modulate alcohol drinking behavior in female mice, but the underlying synaptic mechanisms remain unknown. Medium spiny neurons (MSNs) of the striatum express D1- or D2-type dopamine receptors, which are differentially modulated by alcohol. Here we used whole-cell patch-clamp recordings to examine how deletion of the clock gene Bmal1 affects spontaneous excitatory postsynaptic currents (sEPSCs) in electrophysiologically identified D1 and D2 neurons of the female mouse dorsomedial striatum (DMS). Prior intermittent access to alcohol increased sEPSC amplitude in putative D1 neurons of wildtype mice without affecting sEPSC frequency, and this increase was accompanied by greater dendritic branching and complexity in biocytin-filled D1 MSNs. Bmal1 knockout had the opposite effect in D1 neurons, reducing sEPSC amplitude in both alcohol-exposed and alcohol-naive animals. In D2 neurons, alcohol produced only a non-significant trend toward increased sEPSC amplitude in wildtype mice, but a significant increase in Bmal1 knockout mice. Thus, local disruption of Bmal1 appears to block the alcohol-induced enhancement of sEPSCs in D1 neurons while unmasking a similar enhancement in D2 neurons. These findings may help explain how Bmal1 deletion in the DMS reduces alcohol consumption in female mice.

neuroscience↗

bioRxiv2026

Collateral consequences of oxidative stress responses result in mitomycin C sensitivity

Bacterial survival depends on carefully balanced antioxidant defenses against reactive oxygen species. Caulobacter crescentus employs the transcription factor OxyR to activate hydrogen peroxide detoxification genes, a seemingly straightforward protective strategy. Here, we reveal an unexpected consequence of environment or genetic activation of peroxide resistance via OxyR resulting in vulnerability to reductively activated antibiotics. An activated OxyR allele protects against peroxide stress due to upregulation of the catalase-peroxidase KatG but simultaneous induction of the AhpCF reductase sensitizes cells to the reductively activated genotoxin mitomycin C. We show that this collateral vulnerability can be induced by brief exposure to oxidative stress and extends to bacteria beyond Caulobacter. Our findings illuminate a hidden cost of antioxidant signaling as robust defense against oxidative stress paradoxically creates exploitable vulnerabilities to chemotherapeutic prodrugs. SIGNIFICANCECellular stress responses are vital for survival, but our work reveals an underappreciated principle where activation creates trade-offs with far-reaching consequences. Using Caulobacter crescentus, we show that strengthened antioxidant defenses against peroxide simultaneously increase vulnerability to mitomycin C. Because these regulatory mechanisms are widespread across bacteria, our findings suggest a general model wherein stress-defense pathways unavoidably compromise resistance to alternative threats. This conceptual framework not only advances our understanding of stress-response regulation but also identifies new strategies for therapeutic exploitation of bacterial vulnerabilities.

microbiology↗

bioRxiv2026

ImmTACs overcome cytotoxic T cell suppression

Immune mobilizing monoclonal TCR against cancer (ImmTAC) are cancer therapeutics that activate T cells through recognition of a tumor-associated antigenic MHC/peptide complex. A first-in-class ImmTAC, Tebentafusp, is approved for the treatment of metastatic uveal melanoma. While clinical efficacy is thus established, the cellular mechanisms underpinning ImmTAC action are not fully resolved. Using a recently established experimental strategy to generate suppressed human primary cytotoxic T lymphocytes (CTL), we have investigated an ImmTAC that recognizes a peptide derived from the tumor associated antigen NY-ESO-1 in comparison to direct engagement of a TCR recognizing the same MHC/peptide complex. In response to endogenous antigen presentation, ImmTACs could elicit tumor cell cytolysis by suppressed CTL, but not IFN{gamma} secretion, in a manner dependent on the engager affinity for CD3{varepsilon}. ImmTACs enhanced the efficient execution of subcellular CTL polarization steps required for effective cytolysis and could trigger calcium signaling. These data establish that ImmTACs activate CTL similarly to direct engagement of a TCR by MHC/peptide and are likely to retain this capability under suppressive conditions such as in the tumor microenvironment.

immunology↗

bioRxiv2026

High-throughput Genome Wide CRISPR Knock Out mechanical sort identifies genes driving metastatic cancer cell softening

Cell mechanics can serve as an important biomarker for cell state and phenotype, such as metastatic ability. While some molecular mechanisms underlying cell mechanical properties have been investigated through targeted analyses, a genome-wide study of human genes and gene networks that modulate cell biophysical properties has not been attempted. In this work, we combined a microfluidic stiffness-based sorting device with a genome-scale CRISPR knockout (GeCKO) screen in order to investigate the effect of individual gene knockouts on cell stiffening and cell softening across the entire protein-coding genome. We processed approximately 150 million Cas9-expressing ovarian cancer cells that had been transduced with a library of 76,000 single guide RNAs (sgRNAs) against the 19,000 protein-coding genes in the genome. The cells were sorted into 5 mechanical subsets. We identified 7 gene knockouts that were significantly depleted in the softer subsets and over 700 gene knockouts that were significantly enriched in the stiffer subsets. Of these significant genes of interest, we selected 3 genes that were highly expressed in our ovarian cancer cell line with greater than 100-fold enrichment in the stiff outlet and resulted in significant changes in ovarian cancer patient survival. These genes, PIK3R4, CCDC88A, and GSK3B, when knocked out result in a significant and predicted increase in cell stiffness. This study is the first to explore the relation between human gene expression and cell mechanics at the genome-scale to generate datasets at the intersection between cell genotype, mechanotype, and phenotype for metastatic cancer cells. The method could also be applied to study the effect of genes on other biophysical cell processes as well as for identifying pathways for the control of cellular mechanics across many cell types.

bioengineering↗

bioRxiv2025

A dynamic spatiotemporal normalization model for continuous vision

How does the visual system process dynamic inputs? Perception and neural activity are shaped by the spatial and temporal context of sensory input, which has been modeled by divisive normalization over space or time. However, theoretical work has largely treated normalization separately within these dimensions and has not explained how future stimuli can suppress past ones. Here we introduce a dynamic spatiotemporal normalization model (D-STAN) with a unified spatiotemporal receptive field structure that implements normalization across both space and time and ask whether this model captures the bidirectional effects of temporal context on neural responses and behavior. D-STAN implements temporal normalization through excitatory and suppressive drives that depend on the recent history of stimulus input, controlled by separate temporal windows. We found that biphasic temporal receptive fields emerged from this normalization computation, consistent with empirical observations. The model also reproduced several neural response properties, including surround suppression, nonlinear response dynamics, subadditivity, response adaptation, and backwards masking. Further, spatiotemporal normalization captured bidirectional temporal suppression that depended on stimulus contrast, consistent with human behavior. Thus, D-STAN captured a wide range of neural and behavioral effects, demonstrating that a unified spatiotemporal normalization computation could underlie dynamic stimulus processing and perception.

neuroscience↗

bioRxiv2025

Virus infection of honey bee queens alters lipid profiles and indirectly suppresses a retinue pheromone component via reducing ovary mass

Virus infections reduce honey bee (Apis mellifera) ovary mass (in part due to resource-allocation trade-offs with immunity) and are linked to the presence of supersedure cells in colonies, indicating that workers are attempting to replace their queen. Pheromones, lipids, and lipid transport proteins could mediate relationships among virus infection, ovary mass, and supersedure. When we infected honey bee queens in the laboratory and profiled their queen retinue pheromone (QRP) components from head extracts, we found that virus infections specifically reduced the QRP component methyl oleate. Data from an observational field study were consistent with this pattern. Lipidomics analysis of the same extracts suggests that virus infection decreases triacylglycerol abundances (major sources of stored energy). Reducing ovary mass via laying restriction was sufficient to lower methyl oleate abundance [-] suggesting that virus infection reduces methyl oleate indirectly via ovary effects [-] but was insufficient to reduce abundance of most triacylglycerols or stimulate immune effector expression. Abundance of circulating apolipophorin-III, a lipid transporter and putative potentiator of immune effectors, was lower in queens with restricted laying, suggesting that its expression may be controlled by nutrient availability while its immune-stimulating capacity is governed by other mechanisms. Prior research has shown that queen pheromone blends lacking methyl oleate are less attractive to workers; therefore, diminishing methyl oleate could result in a less desirable pheromone bouquet and possibly stimulate supersedure. The mechanism of methyl oleate reduction is yet to be determined, but is clearly tied to ovary size and possibly resource availability or mobilization.

physiology↗

bioRxiv2024

Honey bee egg composition changes seasonally and after acute maternal virus infection

Honey bee (Apis mellifera) colonies depend on the reproductive output of their queens, which in turn is contingent on the care provided by worker bees. Viral infections in queens can compromise reproductive output, while worker infections can inhibit the successful functioning of a colony and its ability to care for the queen. Transgenerational immune priming (TGIP) occurs when queens transfer immune-related compounds or immune elicitors to their offspring, enhancing the ability of subsequent generations to resist infections. These maternal effects on offspring could positively impact colony health and resilience to viral infections, but little is currently known about TGIP for viruses. In this study, we investigate how viral infections affect the proteomic composition of eggs laid by virus-challenged queens (injected with a mixture of black queen cell virus and deformed wing virus B), both in controlled experimental settings and natural field conditions. Our results showed that virus-challenged queens upregulated immune effectors in their eggs and ovaries. In contrast, naturally infected queens from field surveys did not; there were no significant differences in egg protein, lipid, or metabolite composition related to maternal viral load or ovary size. However, egg collection date strongly influenced egg composition, likely reflecting seasonal variations in pollen resources. These findings highlight that while viral infections can induce transgenerational effects on egg proteomes under short-term experimental conditions, such effects are less apparent in natural settings and can be overshadowed by seasonal and other ecological factors.

zoology↗

bioRxiv2023

No trade-off between ovary activation and immune protein expression in female bumble bees (Bombus impatiens)

Evidence for a trade-off between reproduction and immunity has manifested in many animal species, including social insects. However, investigations in social insect queens present a conundrum: new gynes of many social hymenopterans, such as bumble bees and ants, must first mate, then transition from being solitary to social as they establish their nests, thus experiencing confounding shifts in environmental conditions. Worker bumble bees offer an opportunity to investigate patterns of immune protein expression associated with ovary activation while minimizing extraneous environmental factors and genetic differences. Here, we use proteomics to interrogate the patterns of immune protein expression of female bumble bees (Bombus impatiens) by 1) sampling queens at different stages of their life cycle, then 2) by sampling workers with different degrees of ovary activation. Patterns of immune protein expression in the hemolymph of queens are consistent with a reproduction-immunity trade-off, but equivalent samples from workers are not. This brings into question whether queen bumble bees really experience a reproduction-immunity trade-off, or if patterns of immune protein expression may actually be due to the selective pressure of the different environmental conditions they are exposed to during their life cycle.

physiology↗

bioRxiv2021

Cryptic costs of viral infection in a model social insect

Declining insect populations emphasize the importance of understanding the drivers underlying reductions in insect fitness. Here, we investigated viruses as a threat to social insect reproduction, using honey bees as a model species. We report that in a sample of N = 93 honey bee (Apis mellifera) queens from nine beekeeping operations across a wide geographic range, high levels of natural viral infection are associated with decreased ovary mass. We confirmed this finding in an independent sample of N = 54 queens. Failed (poor quality) queens displayed higher levels of viral infection, reduced sperm viability, smaller ovaries, and altered ovary protein composition compared to healthy queens. We experimentally infected queens with Israeli acute paralysis virus (IAPV) and found that the ovary masses of IAPV-injected queens were significantly smaller than control queens, demonstrating a causal relationship between viral infection and ovary size. Queens injected with IAPV also had significantly lower expression of vitellogenin, the main source of nutrition deposited into developing oocytes, and higher levels of heat-shock proteins (HSPs), which are part of the honey bees antiviral response. This work together shows that viral infections occurring naturally in the field are compromising queen reproductive success.

systems biology↗

bioRxiv2020

Trade-offs between sperm viability and immune protein expression in honey bee queens (Apis mellifera)

Queens of many social hymenoptera keep sperm alive within their specialized storage organ, the spermatheca, for years, defying the typical trade-off between lifespan and reproduction. However, whether honey bee queens experience a trade-off between reproduction and immunity is unknown, and the biochemical processes underlying sperm viability are poorly understood. Here, we survey quality metrics and viral loads of honey bee queens from nine genetic sources. Queens rated as failed by beekeepers had lower sperm viability, fewer sperm, and higher levels of SBV and BQCV. Quantitative proteomics on N = 123 spermathecal fluid samples shows, after accounting for sperm count, health status, and apiary effects, five spermathecal fluid proteins significantly correlating with sperm viability: odorant binding protein (OBP)14, lysozyme, serpin 88Ea, artichoke, and heat-shock protein (HSP)10. The significant negative correlation of lysozyme--a conserved immune effector--with sperm viability is consistent with a reproduction vs. immunity trade-off in honey bee queens.

molecular biology↗

bioRxiv2018

Convergent evolution of effector protease recognition by Arabidopsis and barley

The Pseudomonas syringae cysteine protease AvrPphB activates the Arabidopsis resistance protein RPS5 by cleaving a second host protein, PBS1. AvrPphB induces defense responses in other plant species, but the genes and mechanisms mediating AvrPphB recognition in those species have not been defined. Here, we show that AvrPphB induces defense responses in diverse barley cultivars. We show also that barley contains two PBS1 orthologs, that their products are cleaved by AvrPphB, and that the barley AvrPphB response maps to a single locus containing a nucleotide-binding leucine-rich repeat (NLR) gene, which we termed AvrPphB Resistance 1 (Pbr1). Transient co-expression of PBR1 with wild-type AvrPphB, but not a protease inactive mutant, triggered defense responses, indicating that PBR1 detects AvrPphB protease activity. Additionally, PBR1 co-immunoprecipitated with barley and N. benthamiana PBS1 proteins, suggesting mechanistic similarity to detection by RPS5. Lastly, we determined that wheat cultivars also recognize AvrPphB protease activity and contain a Pbr1 ortholog. Phylogenetic analyses showed however that Pbr1 is not orthologous to RPS5. Our results indicate that the ability to recognize AvrPphB evolved convergently, and imply that selection to guard PBS1-like proteins is ancient. Also, the results suggest that PBS1-based decoys may be used to engineer protease effector recognition-based resistance in barley and wheat.

plant biology↗

bioRxiv2017

Death pheromones triggering hygienic behavior in honey bees (Apis mellifera L.)

Eusocial insects live in teeming societies with thousands of their kin. In this crowded environment, workers combat disease by removing or burying their dead or diseased nestmates. For honey bees, we found that hygienic brood-removal behavior is triggered by two odorants - {beta}-ocimene and oleic acid - which are released from brood upon freeze-killing. {beta}-ocimene is a co-opted pheromone that normally signals larval food-begging, whereas oleic acid is a conserved necromone across arthropod taxa. Interestingly, the odorant blend can induce hygienic behavior more consistently than either odorant alone. We suggest that the volatile {beta}-ocimene flags hygienic workers attention, while oleic acid is the death cue, triggering removal. Bees with high hygienicity detect and remove brood with these odorants faster than bees with low hygienicity, and both molecules are strong ligands for hygienic behavior-associated odorant binding proteins (OBP16 and OBP18). Odorants that induce low levels of hygienic behavior, however, are weak ligands for these OBPs. We are therefore beginning to paint a picture of the molecular mechanism behind this complex behavior, using odorants associated with freeze-killed brood as a model.

animal behavior and cognition↗