Biology subjects

Feldman, J. L.

Publications and source records attributed to Feldman, J. L..

At least 19 recordsLinked to original sources

bioRxiv2025

Reciprocal E-cadherin signaling aligns apical surfaces between neighboring epithelial tissues to complete the C. elegans digestive tract

Epithelial cells form barriers with specialized apical membranes facing the external environment or internal lumens, yet how interconnected epithelial tubular systems form from cystic epithelial primordia is poorly studied. At the boundaries of cystic epithelial primordia, apical surfaces must correctly align to yield functional connections within and between organs. Here, we use the digestive tract of the developing C. elegans embryo to define a crucial two-cell tissue, the rectal valve (vir) cells, that mediate the connection and apical alignment between the posterior intestine and the rectum. Vir cells migrate while attached to the rectal primordium to create an essential connection with the intestinal primordium and complete the digestive tract. Vir contact with the intestine, through E-cadherin signaling, is required for the intestinal apical surface to undergo a transition from a cyst with an inaccessible apical surface to an open tube competent to connect with neighboring tissues. Ablation of vir cell progenitors results in a lethal disconnection between the intestinal and rectal apical surfaces due to failure of this first step in apical accessibility. To resolve the final gap in apical continuity between the intestine and rectum, vir cells develop bipolar apical surfaces, each facing the neighboring tissue. The intestine-facing apical puncta in vir require intestinal E-cadherin signaling to form and accumulate as well as to correctly partition apical proteins within vir cells. Together these results establish E-cadherin-based signaling as the crucial factor aligning apical surfaces across primordia as epithelial cells from different germ layers form a vital connection.

developmental biology↗

bioRxiv2025

Dynamic remodeling of centrioles and the microtubule cytoskeleton in the lifecycle of chytrid fungi

Cells reorganize in space and time to move and divide - complex behaviors driven by their internal cytoskeleton. While we have substantial knowledge of the molecular parts and rules of cytoskeletal assembly, we know less about how structures are remodeled, for example to interconvert centrioles from the ciliary base to the centrosome. To study this in an evolutionary context we use the chytrid fungus, Rhizoclosmatium globosum, a member of the zoosporic fungi which have centrioles and cilia, lost in other fungal lineages. Chytrids undergo reorganization of their microtubule cytoskeleton as they cycle from zoospore to multinucleated coenocyte. We use comparative bioinformatics, RNA sequencing, and expansion microscopy to map the microtubule cytoskeleton over the chytrid lifecycle. We find that when zoospores encyst, cilia are retracted into the cytoplasm and degraded, and centrioles detach but are protected from degradation. A shortened proximal centriole then forms the mitotic centrosome and ultimately elongates to form cilia at the end of the mitotic cycles, driven by a conserved transcriptional program. Thus, structural remodeling of the chytrid centriole is coupled temporally to ciliated stages rather than mitotic cycles, which may serve as a mechanism to tune microtubule organization to meet the needs of different lifecycle stages.

cell biology↗

bioRxiv2024

Episodic slow breathing in mice markedly reduces fear responses

We sought to delineate neural mechanisms underlying the effects of controlled breathing in humans, such as in meditation or breathwork, which can reduce depression, anxiety, stress, and pain. Thus, we developed a murine model, where breathing frequency in awake mice can be substantially slowed. When done for 30 min/day for 4 weeks, these mice had significant reductions in stress-related changes in behavior compared to control mice. We conclude that slow breathing effects on emotional state are present in mice, and which cannot be attributed directly to top-down influences such as volitional or emotional control or placebo effects. Our study paves the way for investigations of the neural mechanisms underlying body-brain interactions related to the effects of controlled breathing as well as a platform for optimization of its therapeutic use for amelioration of ordinary and pathological stress and anxiety in humans.

neuroscience↗

bioRxiv2024

Proof of Concept for High-Dose Cannabidiol Pretreatment to Antagonize Opioid Induced Persistent Apnea

Using a mouse equivalent of FDA-approved cannabidiol (CBD) dosing, we found high dose CBD affects opioid induced persistent apnea (OIPA), the principal cause of opioid related fatalities. CBD pretreatment mitigated respiratory depression from fentanyl in awake mice and significantly delayed OIPA onset in anesthetized mice, effective as the opioid antagonist naloxone. The powerful effect of CBD pretreatment on OIPA suggests a novel therapeutic strategy to reduce fatal opioid overdose incidence.

physiology↗

bioRxiv2024

Sigh generation in preBötzinger Complex

We explored neural mechanisms underlying sighing. Photostimulation of parafacial (pF) neuromedin B (NMB) or gastrin releasing peptide (GRP), or preBotzinger Complex (preBotC) NMBR or GRPR neurons elicited ectopic sighs with latency inversely related to time from preceding endogenous sigh. Of particular note, ectopic sighs could be produced without involvement of these peptides or their receptors in preBotC. Moreover, chemogenetic or optogenetic activation of preBotC SST neurons induced sighing, even in the presence of NMBR and/or GRPR antagonists. We propose that an increase in the excitability of preBotC NMBR or GRPR neurons not requiring activation of their peptide receptors activates partially overlapping pathways to generate sighs, and that preBotC SST neurons are a downstream element in the sigh generation circuit that converts normal breaths into sighs.

neuroscience↗

bioRxiv2024

Somatic polyploidy supports biosynthesis and tissue function by increasing transcriptional output

Cell size and biosynthetic capacity generally increase with increased DNA content. Polyploidy has therefore been proposed to be an adaptive strategy to increase cell size in specialized tissues with high biosynthetic demands. However, if and how DNA concentration limits cellular biosynthesis in vivo is not well understood, and the impacts of polyploidy in non-disease states is not well studied. Here, we show that polyploidy in the C. elegans intestine is critical for cell growth and yolk biosynthesis, a central role of this organ. Artificially lowering the DNA/cytoplasm ratio by reducing polyploidization in the intestine gave rise to smaller cells with more dilute mRNA. Highly-expressed transcripts were more sensitive to this mRNA dilution, whereas lowly-expressed genes were partially compensated - in part by loading more RNA Polymerase II on the remaining genomes. DNA-dilute cells had normal total protein concentration, which we propose is achieved by increasing production of translational machinery at the expense of specialized, cell-type specific proteins.

cell biology↗

bioRxiv2023

MAP9/MAPH-9 supports axonemal microtubule doublets and modulates motor movement

Microtubule doublets (MTDs) are a well conserved compound microtubule structure found primarily in cilia. However, the mechanisms by which MTDs form and are maintained in vivo remain poorly understood. Here, we characterize microtubule-associated protein 9 (MAP9) as a novel MTD-associated protein. We demonstrate that C. elegans MAPH-9, a MAP9 homolog, is present during MTD assembly and localizes exclusively to MTDs, a preference that is in part mediated by tubulin polyglutamylation. Loss of MAPH-9 caused ultrastructural MTD defects, dysregulated axonemal motor velocity, and perturbed cilia function. As we found that the mammalian ortholog MAP9 localized to axonemes in cultured mammalian cells and mouse tissues, we propose that MAP9/MAPH-9 plays a conserved role in supporting the structure of axonemal MTDs and regulating ciliary motors.

cell biology↗

bioRxiv2022

E-cadherin/HMR-1 and PAR-3 break symmetry at stable cell contacts in a developing epithelium

Tissue-wide patterning is essential to multicellular development, requiring cells to individually generate polarity axes and coordinate them in space and time with neighbors. Using the C. elegans intestinal epithelium, we identified a patterning mechanism informed by stabilized cell/cell contact and executed via the scaffolding protein PAR-3 and the transmembrane protein E-cadherin/HMR-1. Intestinal cells break symmetry as PAR-3 and HMR-1 recruit apical determinants into micron-scale local polarity complexes (LPCs) at homotypic contacts. LPCs undergo a HMR-1-based migration to a common tissue midline, thereby establishing tissue-wide polarity. Thus, symmetry breaking results from PAR-3-dependent intracellular polarization coupled to HMR-1-based tissue-level communication that occurs through a non-adhesive signaling role for HMR-1. Intestinal cells gain initial asymmetry from differential contact duration as homotypic contacts last longer than heterotypic contacts, thus providing stable platforms for LPC assembly and offering a logical and likely conserved framework for how internal epithelia with no obvious pre-existing asymmetries can polarize.

developmental biology↗

bioRxiv2021

Phase- and State-Dependent Modulation of Breathing Pattern by preBötzinger Complex Somatostatin Expressing Neurons

As neuronal subtypes are increasingly categorized, delineating their functional role is paramount. The preBotzinger Complex (preBotC) subpopulation expressing the neuropeptide somatostatin (SST) is classified as mostly excitatory, inspiratory-modulated and not rhythmogenic. We further characterized their phenotypic identity; 87% were glutamatergic and the balance were glycinergic and/or GABAergic. We then used optogenetics to investigate their modulatory role in both anesthetized and freely moving mice. In anesthetized mice, short photostimulation (100 ms) of preBotC SST+ neurons modulated breathing-related variables in a combinatory phase- and state-dependent manner; changes in inspiratory duration, inspiratory peak amplitude (Amp), and phase were different at higher ([≥]2.5 Hz) vs. lower (<2.5 Hz) breathing frequency. Moreover, we observed a biphasic effect of photostimulation during expiration that is probabilistic, i.e., photostimulation given at the same phase in consecutive cycles can evoke opposite responses (lengthening vs. shortening of the phase). This unexpected probabilistic state- and phase-dependent responses to photostimulation exposed properties of the preBotC that were not predicted and cannot be readily accounted for in current models of preBotC pattern generation. In freely moving mice, prolonged photostimulation decreased f in normoxia, hypoxia, or hypercapnia, and increased Amp and produced a phase advance, which was similar to the results in anesthetized mice when f[≥]2.5 Hz. We conclude that preBotC SST+ neurons are a key mediator of the extraordinary and essential lability of breathing pattern. Key points summaryO_LIWe transfected preBotzinger Complex (preBotC) somatostatin-expressing (SST+) neurons, which modulate respiratory pattern, but are not rhythmogenic, with channelrhodopsin to investigate phase- and state-dependent modulation of breathing pattern in anesthetized and freely behaving mice in normoxia, hypoxia, and hypercapnia. C_LIO_LIIn anesthetized mice, photostimulation of preBotC SST+ neurons during inspiration increased inspiratory duration and amplitude regardless of baseline breathing frequency, f. C_LIO_LIIn anesthetized mice with low f (<2.5 Hz), photostimulation of preBotC SST+ neurons during expiration evoked either phase advance or phase delay, whereas in anesthetized mice with high f ([≥]2.5 Hz) and in freely behaving mice in normoxia, hypoxia, or hypercapnia, photostimulation always evoked phase advance. C_LIO_LIPhase- and state-dependency is a function of overall breathing network excitability. C_LIO_LIThe f-dependent probabilistic modulation of breathing pattern by preBotC SST+ neurons was unexpected, requiring reconsideration of current models of preBotC function, which neither predict nor can readily account for such responses. C_LI

neuroscience↗

bioRxiv2020

Microcircuit synchronization and heavy tailed synaptic weight distribution in preBötzinger Complex contribute to generation of breathing rhythm

The preBotzinger Complex, the mammalian inspiratory rhythm generator, encodes inspiratory time as motor pattern. Spike synchronization throughout this sparsely connected network generates inspiratory bursts albeit with variable latencies after preinspiratory activity onset in each breathing cycle. Using preBotC rhythmogenic microcircuit minimal models, we examined the variability in probability and latency to burst, mimicking experiments. Among various physiologically plausible graphs of 1000 point neurons with experimentally determined neuronal and synaptic parameters, directed Erd[o]s-Renyi graphs best captured the experimentally observed dynamics. Mechanistically, preBotC (de)synchronization and oscillatory dynamics are regulated by the efferent connectivity of spiking neurons that gates the amplification of modest preinspiratory activity through input convergence. Furthermore, to replicate experiments, a lognormal distribution of synaptic weights was necessary to augment the efficacy of convergent coincident inputs. These mechanisms enable exceptionally robust yet flexible preBotC attractor dynamics that, we postulate, represent universal temporal-processing and decision-making computational motifs throughout the brain.

neuroscience↗

bioRxiv2020

Apical PAR complex proteins protect against epithelial assaults to create a continuous and functional intestinal lumen

Sustained polarity and adhesion of epithelial cells is essential for the protection of our organs and bodies, and this epithelial integrity emerges during organ development amidst numerous morphogenetic assaults. Using the developing C. elegans intestine as an in vivo model, we investigated how epithelial cells maintain integrity through cell division and elongation to build a functional tube. Live-imaging revealed that apical PAR complex proteins PAR-6/Par6 and PKC-3/aPkc remained apical during mitosis while apical microtubules and microtubule-organizing center (MTOC) proteins were transiently removed. Intestine-specific depletion of PAR-6, PKC-3, and the aPkc regulator CDC-42/Cdc42 caused persistent gaps in the apical MTOC as well as in other apical and junctional proteins after cell division and in non-dividing cells that elongated. Upon hatching, gaps coincided with luminal constrictions that blocked food, and larvae arrested and died. Thus, the apical PAR complex maintains apical and junctional continuity to construct a functional intestinal tube.

developmental biology↗

bioRxiv2020

Proximity labeling at non-centrosomal microtubule-organizing centers reveals VAB-10B and WDR-62 as distinct microtubule regulators

Reorganization of microtubules from the centrosome to non-centrosomal subcellular sites is central to cell differentiation. To identify components of non-centrosomal microtubule organizing centers in differentiated cells of a living organism, we developed the biotin ligase-based proximity labeling approach TurboID for use in C. elegans. We identified proteins proximal to the non-centrosomal microtubule minus end protein PTRN-1/Patronin at the apical membrane of epithelial cells, focusing on two conserved proteins: spectraplakin protein VAB-10B and WDR-62, a protein we identify as homologous to vertebrate primary microcephaly disease gene WDR62. We found that WDR-62 and VAB-10B independently regulate the growth and localization of non-centrosomal microtubules and the apical targeting of microtubule minus end proteins. This regulation occurs downstream of cell polarity and in conjunction with actin. Our data suggest a division of labor where microtubule growth and anchoring are regulated by distinct complexes and uncover novel functions of spectraplakins and WDR62 family proteins.

cell biology↗

bioRxiv2020

Centriole-less pericentriolar material serves as a microtubule organizing center at the base of C. elegans sensory cilia

During mitosis in animal cells, the centrosome acts as a microtubule organizing center (MTOC) to assemble the mitotic spindle. MTOC function at the centrosome is driven by proteins within the pericentriolar material (PCM), however the molecular complexity of the PCM makes it difficult to differentiate the proteins required for MTOC activity from other centrosomal functions. We used the natural spatial separation of PCM proteins during mitotic exit to identify a minimal module of proteins required for centrosomal MTOC function in C. elegans. Using tissue specific degradation, we show that SPD-5, the functional homolog of CDK5RAP2, is essential for embryonic mitosis while SPD-2/CEP192 and PCMD-1, which are essential in the zygote, are dispensable. Surprisingly, although the centriole is known to be degraded in the ciliated sensory neurons in C. elegans [1-3], we find evidence for "centriole-less PCM" at the base of cilia and use this structure as a minimal testbed to dissect centrosomal MTOC function. Super-resolution imaging revealed that this PCM inserts inside the lumen of the ciliary axoneme and directly nucleates the assembly of dendritic microtubules towards the cell body. Tissue-specific degradation in ciliated sensory neurons revealed a role for SPD-5 and the conserved microtubule nucleator {gamma}-TuRC, but not SPD-2 or PCMD-1, in MTOC function at centriole-less PCM. This MTOC function was in the absence of regulation by mitotic kinases, highlighting the intrinsic ability of these proteins to drive microtubule growth and organization and further supporting a model that SPD-5 is the primary driver of MTOC function at the PCM.

cell biology↗

bioRxiv2020

SWI/SNF antagonizes SIR heterochromatin to promote transcription of genes expressed during mitotic exit in Saccharomyces cerevisiae

Heterochromatin is a repressive, specialized chromatin structure that is central to eukaryotic transcriptional regulation and genome stability. In the budding yeast, Saccharomyces cerevisiae, heterochromatin formation requires Sir2p, Sir3p, and Sir4p, and these Sir proteins create specialized chromatin structures at telomeres and silent mating type loci. Previously, we reported that the SWI/SNF chromatin remodeling enzyme can evict Sir3 from chromatin fibers in vitro, though whether this activity contributes to the role of SWI/SNF as a transcriptional activator at euchromatic loci is unknown. Here, we characterize genetic interactions between the SIR genes (SIR2, SIR3, and SIR4) and genes encoding subunits of the chromatin remodelers SWI/SNF and INO80C, as well genes encoding the histone deacetylases Hst3 and Hst4. We find that loss of SIR genes partially rescues the growth defects of swi2, ino80, and hst3/hst4 mutants during replication stress conditions. Interestingly, partial suppression of swi2, ino80, and hst3 hst4 mutant phenotypes is due to the pseudo-diploid state of sir mutants, but a significant portion is due to more direct functional interactions. Consistent with this view, transcriptional profiling of strains lacking Swi2 or Sir3 identifies a set of genes whose expression in the M/G1 phase of the cell cycle requires SWI/SNF to antagonize the repressive impact of Sir3.

genetics↗

bioRxiv2019

Monosynaptic projections to excitatory and inhibitory preBotzinger Complex neurons

The key driver of breathing rhythm is the preBotzinger Complex (preBotC) whose activity is modulated by various categorical inputs, e.g., volitional, physiological, emotional. While the preBotC is highly interconnected with other regions of the breathing central pattern generator (bCPG) in the brainstem, there is no data about the direct projections to either excitatory and inhibitory preBotC subpopulations from other elements of the bCPG or from suprapontine regions. Using modified rabies tracing, we identified neurons throughout the brain that send monosynaptic projections to identified excitatory and inhibitory preBotC neurons. Within the brainstem, neurons from sites in the bCPG, including the contralateral preBotC, Botzinger Complex (BotC), the nucleus of the solitary tract (NTS), parafacial region (pFL/pFV or RTN/pFRG), and parabrachial nuclei, send direct projections to both excitatory and inhibitory preBotC neurons. Suprapontine inputs to the excitatory and inhibitory preBotC neurons include the superior colliculus, red nucleus, amygdala, hypothalamus, and cortex; these projections represent potential direct pathways for volitional, emotional, and physiological control of breathing.

neuroscience↗

bioRxiv2019

Network Synchronization and Synchrony Propagation:Emergent Elements of Inspiration

The preBotzinger Complex (preBotC) - the kernel of breathing rhythmogenesis in mammals - is a non-canonical central pattern generator with undetermined mechanisms. We assessed preBotC network dynamics under respiratory rhythmic and nonrhythmic conditions in vitro. In each cycle under rhythmic conditions, an inspiratory burst emerges as (presumptive) preBotC rhythmogenic neurons transition from aperiodic uncorrelated population spike activity to become increasingly synchronized during preinspiration, triggering bursts; burst activity subsides and the cycle repeats. In a brainstem slice in nonrhythmic conditions, antagonizing GABAA receptors can initiate this periodic synchronization and consequent rhythm coincident with inducing a higher conductance state in nonrhythmogenic preBotC output neurons. Furthermore, when input synchrony onto these neurons was weak, preBotC activity failed to propagate to motor nerves. Our analyses uncover a dynamic reorganization of preBotC network activity - underpinning intricate cyclic neuronal interactions leading to network synchronization and its efficient propagation - correlated with and, we postulate, essential to, rhythmicity.

neuroscience↗

bioRxiv2019

Inspiratory rhythmogenic activity is burst-independent and opioid-sensitive

How mammalian neural circuits generate rhythmic activity in motor behaviors, such as breathing, walking, and chewing, remains elusive. For breathing, rhythm generation can be localized to a brainstem nucleus called the preBotzinger Complex (preBotC). Rhythmic preBotC population activity consists of small amplitude burstlets, which we hypothesize are rhythmogenic, and larger inspiratory bursts, which drive motoneuronal activity. If burstlets are rhythmogenic, opioids, analgesics that can cause profound respiratory depression, should similarly reduce burstlet frequency. In conditions where burstlets were separated from bursts in medullary slices from neonatal mice, the -opioid receptor (OR) agonist DAMGO decreased burstlet frequency. DAMGO-mediated depression was abolished by genetic deletion of ORs in a glutamatergic preBotC subpopulation and was reduced by Substance P, but not blockade of inhibitory synaptic transmission. Our findings suggest that rhythmogenesis need not rely on strong bursts of activity associated with motor output and point to strategies for ameliorating opioid-induced depression of breathing.

neuroscience↗

bioRxiv2018

A two-step mechanism for the inactivation of microtubule organizing center function at the centrosome

SummaryDuring mitosis, the centrosome acts as a microtubule organizing center (MTOC), orchestrating microtubules into the mitotic spindle through its pericentriolar material (PCM). This activity is biphasic, cycling through assembly and disassembly during the cell cycle. Although hyperactive centrosomal MTOC activity is a hallmark of some cancers, little is known about how the centrosome is inactivated as an MTOC. Analysis of endogenous PCM proteins in C. elegans revealed that the PCM is composed of distinct protein territories that are removed from the centrosome at different rates and using different behaviors. Inhibition of PP2A phosphatases stabilized the PCM and perturbation of cortical pulling forces altered the timing and behavior by which proteins were removed from the centrosome. These data indicate that PCM disassembly is a two-step process, beginning with a phosphatase-dependent dissolution of PCM proteins followed by the ejection of ruptured PCM by cortical forces, ultimately inactivating MTOC function at the centrosome.

cell biology↗