Biology subjects

Collins, K. L.

Publications and source records attributed to Collins, K. L..

6 recordsLinked to original sources

bioRxiv2026

Mechanisms of HIV Latency in Hematopoietic Progenitors: GFI1 as a Key Regulator

Durable control of HIV infection is challenged by persistent latent reservoirs, including hematopoietic stem and progenitor cells (HSPCs), which provide a unique niche for proviral silencing. Mechanisms of HIV latency in HSPCs remain poorly studied. Here, we utilized a dual-reporter HIV (89.6 VT1) and single-cell RNA sequencing to identify host factors governing latency in HSPCs. Transcriptomic profiling revealed elevated expression of several genes in latently infected cells, among them the transcriptional repressor GFI1. Functional studies showed that GFI1 suppresses HIV gene expression by binding a conserved sequence near the primer binding site within the long terminal repeat (LTR). Disruption of GFI1 DNA-binding or corepressor recruitment domains diminished its silencing effect. GFI1 also antagonized Tat and NF-{kappa}B-mediated activation, and reversal of GFI1-mediated suppression was most robust with combined HDAC inhibition and NF-{kappa}B activation. These findings position GFI1 as an important regulator of HIV latency in HSPCs.

microbiology↗

bioRxiv2024

Virus-induced vesicular acidification enhances HIV immune evasion.

To block endocytic viral entry, cells typically acidify endosomes via upregulated expression of the short isoform of human nuclear receptor 7 (NCOA7) which boosts vacuolar ATPase (V-ATPase) activity. In our study, primary T cells infected with HIV-1 triggered endosomal acidification, yet NCOA7 levels were only modestly altered. Instead, we observed a pronounced depletion of the 50 kDa form of the sodium/hydrogen exchanger 6 (NHE6). Remarkably, NHE6 overexpression or treating cells with low-dose concanamycin A, a V-ATPase inhibitor, selectively neutralized endosomal pH. This neutralization impaired Nef-driven MHC-I downmodulation by our wildtype HIV reporter virus. Mechanistically, NHE6 overexpression disrupted Nef-mediated MHC-I loss by reducing recruitment of Nef to recycling endosome (Rab11+) compartments and blocking Nef interactions with {beta}-COP, and ARF-1. Together, these findings reveal NHE6 as a critical regulator of endosomal pH and HIV immune evasion.

cell biology↗

bioRxiv2024

Investigating the Triple Code Model in Numerical Cognition Using Stereotactic Electroencephalography

The ability to conceptualize numerical quantities is an essential human trait. According to the "Triple Code Model" (TCM) in numerical cognition, distinct neural substrates encode the processing of visual, auditory, and nonsymbolic numerical representations. While our contemporary understanding of human number cognition has benefited greatly from advances in clinical imaging, limited studies have investigated the intracranial electrophysiological correlates of number processing. In this study, 13 subjects undergoing stereotactic electroencephalography for epilepsy participated in a number recognition task. Drawing upon postulates of the TCM, we presented subjects with numerical stimuli varying in representation type (symbolic vs. non-symbolic) and mode of stimuli delivery (visual vs. auditory). Time-frequency spectrograms were dimensionally reduced with principal component analysis and passed into a linear support vector machine classification algorithm to identify regions associated with number perception compared to inter-trial periods. Across representation formats, the highest classification accuracy was observed in the bilateral parietal lobes. Auditory (spoken and beeps) and visual (Arabic) number formats preferentially engaged the superior temporal cortices and the frontoparietal regions, respectively. The left parietal cortex was found to have the highest classification for number dots. Notably, the putamen exhibited robust classification accuracies in response to numerical stimuli. Analyses of spectral feature maps revealed that non-gamma frequency below 30 Hz held greater than chance classification value and could be potentially used to characterize format specific number representations. Taken together, our findings obtained from intracranial recordings provide further support and expand on the TCM model for numerical cognition.

neuroscience↗

bioRxiv2024

Detection of Fluorescent Protein Mechanical Switching in Cellulo

ABSTRACT/SUMMARYThe ability of cells to sense and respond to mechanical forces is critical in many physiological and pathological processes. However, the mechanisms by which forces affect protein function inside cells remain unclear. Motivated by in vitro demonstrations of fluorescent proteins (FPs) undergoing reversible mechanical switching of fluorescence, we investigated if force-sensitive changes in FP function could be visualized in cells. Guided by a computational model of FP mechanical switching, we develop a formalism for its detection in Forster resonance energy transfer (FRET)-based biosensors and demonstrate its occurrence in cellulo in a synthetic actin-crosslinker and the mechanical linker protein vinculin. We find that in cellulo mechanical switching is reversible and altered by manipulation of cellular force generation as well as force-sensitive bond dynamics of the biosensor. Together, this work describes a new framework for assessing FP mechanical stability and provides a means of probing force-sensitive protein function inside cells. MOTIVATIONThe ability of cells to sense mechanical forces is critical in developmental, physiological, and pathological processes. Cells sense mechanical cues via force-induced alterations in protein structure and function, but elucidation of the molecular mechanisms is hindered by the lack of approaches to directly probe the effect of forces on protein structure and function inside cells. Motivated by in vitro observations of reversible fluorescent protein mechanical switching, we developed an approach for detecting fluorescent protein mechanical switching in cellulo. This enables the visualization of force-sensitive protein function inside living cells.

cell biology↗

bioRxiv2023

HIV-1 Vpr combats the PU.1-driven antiviral response in primary human macrophages.

HIV-1 Vpr promotes efficient spread of HIV-1 from macrophages to T cells by transcriptionally downmodulating restriction factors that target HIV-1 Envelope protein (Env). Here we find that Vpr induces broad transcriptomic changes by targeting PU.1, a transcription factor necessary for expression of host innate immune response genes, including those that target Env. Consistent with this, we find silencing PU.1 in infected macrophages lacking Vpr rescues Env. Vpr downmodulates PU.1 through a proteasomal degradation pathway that depends on physical interactions with PU.1 and DCAF1, a component of the Cul4A E3 ubiquitin ligase. The capacity for Vpr to target PU.1 is highly conserved across primate lentiviruses. In addition to impacting infected cells, we find that Vpr suppresses expression of innate immune response genes in uninfected bystander cells, and that virion-associated Vpr can degrade PU.1. Together, we demonstrate Vpr counteracts PU.1 in macrophages to blunt antiviral immune responses and promote viral spread.

microbiology↗

bioRxiv2019

Mannose receptor is a restriction factor of HIV in macrophages and is counteracted by the accessory protein Vpr

HIV-1 Vpr is necessary to support HIV infection and spread in macrophages. Evolutionary conservation of Vpr suggests an important yet poorly understood role for macrophages in HIV pathogenesis. Vpr counteracts a previously unknown macrophage-specific restriction factor that targets and reduces the expression of HIV Env. Here, we report that the macrophage mannose receptor (MR), is the restriction factor targeting Env in primary human monocyte-derived macrophages. Vpr acts synergistically with HIV Nef to target distinct stages of the MR biosynthetic pathway and dramatically reduce MR expression. Silencing MR or deleting mannose residues on Env rescues Env expression in HIV-1-infected macrophages lacking Vpr. However, we also show that disrupting interactions between Env and MR reduces initial infection of macrophages by cell-free virus. Together these results reveal a Vpr-Nef-Env axis that hijacks a macrophage mannose-MR response system to facilitate infection while evading MRs normal role, which is to trap and destroy mannose-expressing pathogens.

immunology↗