Biology subjects

Holder, B.

Publications and source records attributed to Holder, B..

5 recordsLinked to original sources

bioRxiv2024

Quantitative proteomics reveals differential extracellular vesicle cargo from M1 and M2 monocyte-derived human macrophages

Extracellular vesicles (EVs) mediate intercellular communication by carrying molecular cargo that facilitate diverse physiological processes. Macrophages, playing central roles in immune responses, release EVs that modulate various cellular functions. Given the distinct roles of M1 and M2 macrophage states, understanding the proteomic profiles of their EVs is important for elucidation of EV-mediated signalling and identifying potential biomarkers for diseases involving macrophage polarisation. We employed quantitative proteomics combined with bioinformatics to characterise the proteomic profile of EVs released by M1 and M2 monocyte-derived macrophages. We identified 1,731 proteins in M1/M2 EVs, 132 of which were significantly differentially between M1 and M2. Proteomic data, together with pathway analysis, found that M1/M2 macrophage EV cargo relate to cellular source, and may play roles in shaping immune responses, with M1 EV cargo associated with promotion of pro-inflammatory and antiviral functions, while M2 EV cargo associated with immune regulation and tissue repair. M1 EV cargo was associated with cytokine/chemokine signalling pathways, DNA damage, methylation, and oxidative stress. M2 EV cargo were associated with macrophage alternative-activation signalling pathways, antigen presentation, and lipid metabolism. We also report that macrophage EVs carry metallothioneins, and other related proteins involved in response to metals and oxidative stress.

immunology↗

bioRxiv2024

Breaking free from the clocks tyranny restores memory to brain damaged flies

The relationship between sleep and memory is an active topic of investigation. In this context, we demonstrate that enhancing sleep restores memory to flies with ablated Mushroom Bodies (MB), a key memory center; this is consistent across several memory assays. Mapping the underlying circuitry reveals circadian modulation of a subset of Dopaminergic neurons (DANs) that modulate aversive learning. Using imaging, we show that MB-ablation disrupts, and sleep restores the time of day these neurons are most responsive. Knocking down the receptor for the clock output signal, Pigment-dispersing factor (Pdfr), in this subset of DANs restores memory to MB-ablated flies. Crucially, MB-ablation does not result in memory impairments in the absence of a functioning clock. Our results reveal neuromodulations key role in cognitive restoration, where sleep aids memory in damaged brains, but a functioning clock unexpectedly hinders this process.

neuroscience↗

bioRxiv2022

Distinct non-coding RNA cargo of extracellular vesicles from M1 and M2 human primary macrophages

Macrophages are important antigen presenting cells which can release extracellular vesicles (EVs) carrying functional cargo including non-coding RNAs. Macrophages can be broadly classified into M1 classical and M2 alternatively-activated macrophages. M1 macrophages have been linked with inflammation-associated pathologies, whereas a switch towards an M2 phenotype indicates resolution of inflammation and tissue regeneration. Here, we provide the first comprehensive analysis of the small RNA cargo of EVs from human M1 and M2 primary macrophages. Using small RNA sequencing, we identified several types of small non-coding RNAs in M1 and M2 macrophage EVs including miRNAs, isomiRs, tRNA fragments, piRNA, snRNA, snoRNA and Y-RNA fragments. Distinct differences were observed between M1 and M2 EVs, with higher relative abundance of miRNAs, and lower abundance of tRNA fragments in M1 compared to M2 EVs. MicroRNA-target enrichment analysis identified several gene targets involved in gene expression and inflammatory signalling pathways. EVs were also enriched in tRNA fragments, primarily originating from the 5 end or the internal region of the full length tRNAs, many of which were differentially abundant in M1 and M2 EVs. Similarly, several other small non-coding RNAs, namely piRNAs, snRNAs, snoRNAs and Y-RNA fragments, were differentially enriched in M1 and M2 EVs; we discuss their putative roles in macrophage EVs. In conclusion, we show that M1 and M2 macrophages release EVs with distinct RNA cargo, which has the potential to contribute to the unique effect of these cell subsets on their microenvironment.

immunology↗

bioRxiv2022

A Split-GAL4 screen identifies novel sleep-promoting neurons in the Ventral Nerve Cord of Drosophila

As in the mammalian system, sleep in Drosophila is regulated by multiple brain regions. Among them, neurons projecting to the dorsal Fan-Shaped Body (dFB) have been intensively studied and the data suggest they play a critical role in sleep regulation. The 23E10-GAL4 driver is the most widely used tool to label and manipulate dFB neurons. Multiple studies have reported that activation of 23E10-GAL4 neurons promotes sleep. However, anatomical analyses revealed that 23E10-GAL4 labels 23-30 dFB neurons in the Drosophila brain and many non-dFB neurons in the brain and in the Ventral Nerve Cord (VNC), the fly equivalent of the spinal cord. To better understand the role of individual dFB neurons in sleep regulation, we undertook a Split-GAL4 screen to gain access to subsets of 23E10-GAL4 expressing cells. In this study, we report the discovery of two VNC cholinergic sleep-promoting neurons labeled by the 23E10-GAL4 driver.

neuroscience↗

bioRxiv2019

Isolation and characterisation of watermelon (Citrullus lanatus) extracellular vesicles and their cargo

Extracellular vesicles (EVs) facilitate cell-cell communication in animals and are integral to many physiological and pathological processes. Evidence for the presence and function of EVs in plants is limited. Here, we report that EVs derived from watermelon fruit mesocarp are of similar size and morphology to the animal EV subtype known as exosomes. Analysis of EV constituents revealed that watermelon EVs are negative for endoplasmic reticulum markers, and that the miRNA and protein profiles differ from that of watermelon mesocarp cells, suggesting that these EVs are actively synthesised and are not merely cellular debris. Furthermore, we report a panel of proteins found in in watermelon EVs as well as the published proteomes of grape, grapefruit, lemon and Arabidopsis thaliana EVs that are novel potential plant EV markers. Bioinformatic analyses suggest that plastids and multivesicular bodies are likely sites of biogenesis for EVs from watermelon and other plants. Predicted functional roles of watermelon EVs include development and metabolism, with several of their cargo molecules likely to be key in regulation of fruit development and ripening. Further understanding of how EVs may contribute to these processes would improve understanding of plant cell-cell communication and could aid in the harnessing of plant EVs for greater temporal control of crop development/ripening for the agricultural and retail industries.

plant biology↗