Biology subjects

Ojha, P.

Publications and source records attributed to Ojha, P..

5 recordsLinked to original sources

bioRxiv2026

Cell-type-specific circadian and light-responsive transcriptional dynamics in adult Drosophila neurons

The Drosophila adult central brain contains 240 circadian neurons, of which there are more than 25 different neuron subtypes based on connectomic data. Recent single cell RNA-seq (scRNAseq) characterization of these neurons "around the clock" also indicates a similar number of molecular subtypes of circadian neurons, but other conclusions from these transcriptomic studies warranted verifying and extending with other approaches. To this end: 1) We used a genetic multiplexing strategy to profile the transcriptomes of circadian neurons from multiple time points in a single experiment, reducing confounding technical variation between timepoints; 2) Large numbers of single nuclei were sequenced (snRNA-seq), which was enabled because the new method EL-INTACT purifies nuclei from frozen heads; 3) We assayed 12 time points under both light-dark (LD) and constant darkness (DD) conditions. These approaches showed dramatic transcriptional differences between time points in many circadian neuron types and enhanced time-of-day gene expression analysis. The data indicate that most of this regulation is transcriptional and circadian. There were however a small number of light-dependent transcripts, including a few that correspond to mammalian immediate-early genes. They probably play a role in the light-regulation of gene expression and behavior in specific neurons, perhaps circadian entrainment or phase-shifting. The results taken together provide a more comprehensive picture of gene expression heterogeneity within adult Drosophila circadian neurons including how intrinsic clock mechanisms and light cues are integrated across circadian neuron subtypes.

neuroscience↗

bioRxiv2026

New methods for epigenetic characterization and manipulation of rare fly brain neurons

The molecular circadian clock ticks away similarly in several distinct locations throughout the Drosophila head and body, yet regulation of this clock and specifically that of master transcription factor gene Clock (Clk) and its transcription is largely unknown. ATAC-Seq assays indicate that Clk chromatin appears inaccessible in most head neurons outside the circadian brain network, indicating that circadian clock functionality is gated by access to Clk chromatin. Moreover, distinct Clk enhancers function in circadian neurons versus glia, corresponding to distinct transcripts. To address the chromatin landscape of Clk with more temporal and spatial resolution, we developed a novel, high-purity, nuclear purification method, Elution-based INTACT (El-INTACT). It enabled the first time-resolved, six-timepoint chromatin accessibility landscape of ~120 Drosophila circadian neurons/brain. It moreover allowed chromatin accessibility characterization of the 16 PDF-expressing ventrolateral circadian neurons (LNvs), which identified an additional, previously unidentified Clk enhancer. A CRISPR/Cas9 multiplexed gRNA-based strategy was used to disrupt these enhancers and indicated striking functional specificity. The findings establish a chromatin-level logic for cell type-specific circadian regulation and show that El-INTACT and the multiplexed gRNA-disruption of enhancer function are broadly applicable tools for exploring chromatin regulation in rare cell populations.

genetics↗

bioRxiv2026

IGF1 peptide targets Rett Syndrome astrocytes to degrade IGF binding protein, rescue synaptogenesis and restore mitochondrial function

Rett syndrome (RTT), a severe neurodevelopmental disorder caused by mutations in MECP2, leads to profound synaptic and circuit deficits in the brain. While neurons have historically been the focus of RTT pathology, emerging evidence implicates astrocytes in non-cell autonomous mechanisms that impair synaptic structure, function and development. Here, we uncover a central role for astrocyte-secreted IGFBP2 in mediating these deficits and demonstrate that treatment with an IGF1-derived peptide restores synapse formation by promoting IGFBP2 degradation. Using an indirect astrocyte-neuron co-culture system, we show that astrocytes derived from RTT model mice suppress excitatory synapse formation in wild-type neurons and that this impairment is reversed when RTT astrocytes are treated with IGF1(1-3) peptide. Proteomic analysis reveals elevated levels of IGFBP2 in RTT astrocytes and their conditioned media. IGF1(1-3) peptide treatment leads to proteasomal degradation of IGFBP2, increasing IGF1 bioavailability, restoring mitochondrial function, and enhancing downstream PI3K/Akt signaling in neurons. Our data define a molecular mechanism by which astrocyte dysfunction in RTT can be rescued and provide a mechanistic basis for the therapeutic efficacy of IGF1(1-3) peptide, including Trofinetide, an FDA-approved IGF1 peptide mimetic, in RTT. Significance StatementAstrocyte dysfunction is increasingly recognized as a contributor to neurodevelopmental disorders, yet their precise mechanisms of action remain elusive. Here, we identify IGFBP2 as a key astrocyte-derived inhibitor of synaptogenesis in Rett syndrome. We show that an IGF1-derived peptide, IGF1(1-3), depletes IGFBP2 via proteasomal degradation. This restores IGF1 bioavailability and rescues synaptic function in a non-cell-autonomous manner. These findings provide a mechanistic explanation for the clinical efficacy of IGF1 peptide and its mimetics in Rett syndrome, and highlight astrocytes as rational therapeutic targets in neurodevelopmental and other disorders.

neuroscience↗

bioRxiv2024

Astrocytic modulation of population encoding in mouse visual cortex via GABA transporter 3 revealed by multiplexed CRISPR/Cas9 gene editing

Astrocytes, which are increasingly recognized as pivotal constituents of brain circuits governing a wide range of functions, express GABA transporter 3 (Gat3), an astrocyte-specific GABA transporter responsible for maintenance of extra-synaptic GABA levels. Here, we examined the functional role of Gat3 in astrocyte-mediated modulation of neuronal activity and information encoding. First, we developed a multiplexed CRISPR construct applicable for effective genetic ablation of Gat3 in the visual cortex of adult mice. Using in vivo two-photon calcium imaging of visual cortex neurons in Gat3 knockout mice, we observed changes in spontaneous and visually driven single neuronal response properties such as response magnitudes and trial-to-trial variability. Gat3 knockout exerted a pronounced influence on population-level neuronal activity, altering the response dynamics of neuronal populations and impairing their ability to accurately represent stimulus information. These findings demonstrate that Gat3 in astrocytes profoundly shapes the sensory information encoding capacity of neurons and networks within the visual cortex.

neuroscience↗

bioRxiv2024

Cortical norepinephrine-astrocyte signaling critically mediates learned behavior

Updating behavior based on feedback from the environment is a crucial means by which organisms learn and develop optimal behavioral strategies1-3. Norepinephrine (NE) release from the locus coeruleus (LC) has been shown to mediate learned behaviors4-6 such that in a task with graded stimulus uncertainty and performance, a high level of NE released after an unexpected outcome causes adaptations in subsequent behavior7. Yet, how the transient activity of LC-NE neurons, lasting tens of milliseconds, alters neuronal activity and influences behavior several seconds later is unclear. Here, we show that NE released after an unexpected outcome acts directly on cortical astrocytes via 1 adrenergic (Adra1a) receptors to elicit sustained increases in intracellular calcium. Chemogenetic blockade of astrocytic calcium dynamics prevents trial-to-trial behavioral adaptation. NE stimulation of astrocytes elicits ATP release, and imaging ATP levels in the cortex reveals an increase in extracellular ATP in response to an unexpected outcome. Blocking ATP-driven signaling to neuronal adenosine A1 receptors also prevents post-reinforcement behavioral adaptation. Finally, high density neuronal recordings in prefrontal cortex reveal that a surprising outcome alters the neuronal representation of the stimulus on the subsequent trial without sustained changes in cortical activity; blocking either astrocyte calcium dynamics or A1 receptors occludes these post-reinforcement changes in single-neuron and population neuronal encoding of task variables underlying behavioral changes. Together, these data demonstrate that astrocytes play an essential role in norepinephrine-driven learned behavior: they have prolonged calcium responses to transient norepinephrine release and convey task-relevant reinforcement information across behavioral intervals, enabling selective updating of neuronal task representations to support adaptive behavior.

neuroscience↗