Biology subjects

Pfeifer, K.

Publications and source records attributed to Pfeifer, K..

11 recordsLinked to original sources

bioRxiv2026

Neurofibromin Regulates Sleep Consolidation via Cholinergic Neurons in a Drosophila Model of Neurofibromatosis 1

Neurofibromatosis type 1 (NF1) patients frequently present with fragmented, poor-quality sleep, but the neural circuits and molecular mechanisms underlying this deficit remain undefined. Using Drosophila, we show that loss of the NF1 ortholog dNf1 recapitulates the human phenotype: null mutants exhibit markedly reduced total sleep with blunted nighttime consolidation, reflected in fewer and shorter sleep bouts and elevated inter-bout activity, a recessive phenotype reproduced by independent null alleles and by pan-neuronal RNAi knockdown. Despite the broad expression of dNf1 across the adult CNS, including the mushroom bodies, ellipsoid body, dorsal fan-shaped body, and GABAergic neurons, cell-type-restricted knockdown showed the protein is dispensable for sleep regulation in each of these populations. Instead, dNf1 loss specifically in cholinergic neurons, the most abundant neuronal class in the fly brain, was sufficient to reproduce the deficient, fragmented sleep of null mutants, and restoring wild-type dNf1 to cholinergic neurons of null animals was both necessary and sufficient to rescue sleep. Mechanistically, cholinergic expression of the GAP-related domain (GRD) alone, which normalizes elevated Ras/MAPK signaling, fully restored sleep in nulls, whereas a catalytically dead GRD variant did not, establishing Ras/MAPK dysregulation in cholinergic neurons as the proximate cause. Two disease-associated missense mutations, dNf1C1045Y and dNf1R1861C, produced distinct, dose-graded sleep phenotypes. dNf1C1045Y showed severe deficits resembling the null and was resistant to pan-neuronal, but responded to cholinergic neuron-restricted rescue, consistent with a dominant-negative effect on dNf1 dimerization. In contrast, dNf1R1861C presented a milder phenotype that was largely reversible by wild-type dNf1 but only partially by the GRD domain, implicating an additional, GRD-independent mechanism. Collectively, these findings define cholinergic neurons as the key circuit through which Neurofibromin regulates sleep consolidation via Ras/MAPK signaling and reveal mutation-specific mechanisms that mirror the phenotypic heterogeneity seen in NF1 patients, with implications for genotype-informed understanding of sleep disturbance in this disorder.

neuroscience↗

bioRxiv2025

Bacterial peptide deformylase inhibitors induce prophages in competitors

While antibiotics mediate chemical warfare among microbes, their roles in the wild extend beyond direct growth inhibition(1). Some antibiotics have the potential to mediate interference competition by triggering a bacterial stress response that subsequently activates endogenous viruses integrated in bacterial genomes (prophages). Canonically, this activation is regulated by the SOS response upon DNA damage. Here we show that a metabolite produced by natural isolates of Vibrio ordalii circumvents the SOS response by directly triggering prophage induction in other Vibrio species, co-occurring in the same environment. While the metabolite was previously classified as a broad-spectrum antibiotic, we observe how it acts as a peptide deformylase inhibitor that specifically induces certain prophages, even when target bacterial cells carry multiple other prophages. Its biosynthetic gene cluster, or ord cluster, also encodes its own peptide deformylase (OrdE) which provides self-immunity to producer strains. Likewise, among natural Vibrio isolates that carry similar prophages, resistance against the ord metabolite was found in those that had acquired a divergent second peptide deformylase. Finally, we show that prophage induction by the ord cluster prevents slower-growing producer strains from being outcompeted by their otherwise fast-growing competitors if they carry an inducible prophage. Thus, we demonstrate how natural products play additional impactful roles in communities beyond antibiotic activity and that prophage induction serves as an interference competition strategy, sustaining community diversity.

microbiology↗

bioRxiv2025

Chemical capture of diazo metabolites reveals biosynthetic hydrazone oxidation

Chemically reactive microbial natural products have enabled therapeutic development1,2 via their well-established bioactivities including anticancer,3 antibiotic,4,5 and antioxidant6 activities. However, discovery of reactive metabolites is particularly challenging because they may not tolerate traditional bioactivity-guided isolation workflows.7 Diazo-containing natural products are a subset of highly reactive microbial metabolites that display potent bioactivity8-11 and enable powerful (bio)synthetic transformations;12,13 however, instability of the diazo group to light,14,15 heat,16,17 mild acid,18 and mechanical shock19 has precluded their efficient discovery and application. Here, we develop a reactivity-based screening approach to capture diazo-containing metabolites and facilitate their discovery by mass spectrometry. This workflow revealed two novel diazo-containing natural products, 4-diazo-3-oxo-butanoic acid and diazoacetone, from the human lung pathogen Nocardia ninae. Biosynthetic investigations revealed a distinct enzymatic logic for diazo formation involving hydrazone oxidation catalyzed by the metalloenzyme Dob3, and biochemical characterization of Dob3 suggests promising future applications in biocatalysis. Overall, our work highlights the power of reactivity-guided strategies for identifying reactive metabolites and facilitating the discovery of unique enzymatic transformations.

biochemistry↗

bioRxiv2022

Decreasing Wapl dosage partially corrects transcriptome phenotypes in Nipbl-/+ embryonic mouse brain

Cohesin rings interact with DNA and modulate expression of thousands of genes. NIPBL loads cohesin onto chromosomes and WAPL takes it off. Heterozygous mutations in NIPBL lead to a developmental disorder called Cornelia de Lange syndrome. Nipbl heterozygous mice are a good model for this disease but mutations in WAPL were not known to cause disease or gene expression changes in mammals. Here we show dysregulation of >1000 genes in Wapl{Delta}/+ embryonic mouse brains. The patterns of dysregulation are highly similar to Nipbl heterozygotes, suggesting that Wapl mutations may also cause disease in humans. Since WAPL and NIPBL have opposite effects on cohesins association with DNA, we asked whether a heterozygous Wapl mutation could correct phenotypes seen in Nipbl heterozygous mice. In fact, both gene expression and embryonic growth are partially corrected. Our data are consistent with the view that cohesin dynamics play a key role in regulating gene expression.

genetics↗

bioRxiv2022

Patient-associated mutations in Drosophila Alk perturb neuronal differentiation and promote survival

Activating Anaplastic Lymphoma Kinase (ALK) receptor tyrosine kinase (RTK) mutations occur in pediatric neuroblastoma and are associated with poor prognosis. To study ALK-activating mutations in a genetically controllable system we employed CRIPSR/Cas9, incorporating orthologues of the human oncogenic mutations ALKF1174L and ALKY1278S in the Drosophila Alk locus. AlkF1251L and AlkY1355S mutant Drosophila exhibit enhanced Alk signaling phenotypes, but unexpectedly depend on the Jelly belly (Jeb) ligand for activation. Both AlkF1251L and AlkY1355S mutant larval brains display hyperplasia, represented by increased numbers of Alk-positive neurons. Despite this hyperplasic phenotype, no brain tumors were observed in mutant animals. We show that hyperplasia in Alk mutants was not caused by significantly increased rates of proliferation, but rather by decreased levels of apoptosis in the larval brain. Using single-cell RNA sequencing (scRNA-seq), we identify perturbations during temporal fate specification in AlkY1355S mutant mushroom body lineages. These findings shed light on the role of Alk in neurodevelopmental processes and highlight the potential of activating Alk mutations to perturb specification and promote survival in neuronal lineages.

cancer biology↗

bioRxiv2021

Cardiac pathologies in mouse loss of imprinting models are due to misexpression of H19 long noncoding RNA

Maternal loss of imprinting (LOI) at the H19/IGF2 locus results in biallelic IGF2 and reduced H19 expression and is associated with Beckwith Wiedemann syndrome (BWS). We use mouse models for LOI to understand the relative importance of Igf2 and H19 mis-expression in BWS phenotypes. Here we focus on cardiovascular phenotypes and show that neonatal cardiomegaly is exclusively dependent on increased Igf2. Circulating IGF2 binds cardiomyocyte receptors to hyperactivate mTOR signaling, resulting in cellular hyperplasia and hypertrophy. These Igf2-dependent phenotypes are transient: cardiac size returns to normal once Igf2 expression is suppressed postnatally. However, reduced H19 expression is sufficient to cause progressive heart pathologies including fibrosis and reduced ventricular function. In the heart, H19 expression is concentrated predominantly in endothelial cells (ECs) and regulates EC differentiation both, in vivo and in vitro. Finally, we establish novel mouse models to show that cardiac phenotypes depend on H19 lncRNA interactions with let7 microRNA.

developmental biology↗

bioRxiv2020

Acute Exercise Following Skill Practice Promotes Motor Memory Consolidation in Parkinson's Disease

Acute cardiovascular exercise has shown to promote neuroplastic processes, and thus to improve the consolidation of newly acquired motor skills in healthy adults. First results suggest that this concept may be transferred to populations with motor and cognitive dysfunctions. In this context, Parkinsons disease (PD) is highly relevant since patients demonstrate deficits in motor learning. Hence, in the present study we sought to explore the effect of a single post-practice exercise bout on motor memory consolidation in PD patients. For this purpose, 17 PD patients (Hoehn and Yahr: 1 - 2.5, age: 60.1 {+/-} 7.9 y) practiced a whole-body task followed by either (i) a moderate-intense bout of cycling, or (ii) seated rest for a total of 30 minutes. The motor task required the participants to balance on a tiltable platform (stabilometer) for 30 seconds. During skill practice, patients performed 15 trials followed by a retention test 1 day and 7 days later. We calculated time in balance (platform within {+/-} 5{degrees} from horizontal) for each trial and within- and between-group differences in memory consolidation (i.e. offline learning = skill change from last acquisition block to retention tests) were analyzed. Groups revealed similar improvements during skill practice (F4,60 = .316, p = .866), but showed differences in offline learning, which was only evident after 7 days (F1,14 = 5.602, p = .033). Our results suggest that a single post-practice exercise bout is effective in enhancing long-term motor memory consolidation in a population with motor learning impairments. This may point at unique promoting effects of exercise on dopamine neurotransmission involved in memory formation. Future studies should investigate the potential role of exercise-induced effects on the dopaminergic system. HighlightsO_LIAcute exercise enhanced motor memory consolidation in PD C_LIO_LIEffects were evident only at 7-day retention C_LIO_LIResults may indicate unique exercise-effects on the dopaminergic system C_LIO_LIFindings show promising potential of exercise for motor rehabilitation C_LI

neuroscience↗

bioRxiv2018

Characterization of Drosophila Nidogen/entactin reveals roles in basement membrane stability, barrier function and nervous system plasticity

Basement membranes (BMs) are specialized layers of extracellular matrix (ECM) mainly composed of Laminin, type IV Collagen, Perlecan and Nidogen/entactin (NDG). While the essential and evolutionary conserved functions of Laminin, Collagen and Perlecan are well documented in Drosophila and other species, the proposed role of NDG as the major ECM linker molecule has been challenged by several in vivo studies revealing that NDG is dispensable for viability and BM formation. Here, we report the characterization of the single Ndg gene in Drosophila. Embryonic Ndg expression differed from that of other BM components and was primarily observed in mesodermal tissues and the chordotonal organs, whereas NDG protein localized to all BMs. While loss of Laminin strongly affected BM-localization of NDG, Ndg null mutants exhibited no overt changes in the distribution of BM core components. However, loss of NDG led to ultrastructural BM defects compromising barrier function and stability in vivo. Although Ndg mutants were viable, loss of NDG led to decreased fecundity in flies as well as impaired crawling behavior and reduced response to vibrational stimuli in larvae. Further morphological analysis revealed accompanying defects in the larval peripheral nervous system especially in the chordotonal organs and the neuromuscular junction (NMJ), where Ndg genetically interacted with the Leukocyte-antigen-related-like (Lar) receptor gene to regulate NMJ extension and synaptic differentiation. Taken together, our analysis suggests that NDG is not essential for BM assembly but mediates BM stability and ECM-dependent neural plasticity during Drosophila development.\n\nSummary StatementIn this study we characterize Drosophila Nidogen/Entactin (Ndg) mutants revealing that loss of Ndg impairs basement membrane (BM) stability and permeability as well as proper function of the nervous system.

developmental biology↗

bioRxiv2017

Candidatus Nitrosocaldus cavascurensis, an ammonia oxidizing, extremely thermophilic archaeon with a highly mobile genome

Ammonia oxidizing archaea (AOA) of the phylum Thaumarchaeota are widespread in moderate environments but their occurrence and activity has also been demonstrated in hot springs. Here we present the first cultivated thermophilic representative with a sequenced genome, which allows to search for adaptive strategies and for traits that shape the evolution of Thaumarchaeota. Candidatus Nitrosocaldus cavascurensis has been cultivated from a hot spring in Ischia, Italy. It grows optimally at 68{degrees}C under chemolithoautotrophic conditions on ammonia or urea converting ammonia stoichiometrically into nitrite with a generation time of approximately 25h. Phylogenetic analyses based on ribosomal proteins place the organism as a sister group to all known mesophilic AOA. The 1.58 Mb genome of Ca. N. cavascurensis harbors an amoAXCB gene cluster encoding ammonia monooxygenase, genes for a 3-hydroxypropionate/4-hydroxybutyrate pathway for autotrophic carbon fixation, but also genes that indicate potential alternative energy metabolisms. Although a bona fide gene for nitrite reductase is missing, the organism is sensitive to NO-scavenging, underlining the importance of this compound for AOA metabolism. Ca. N. cavascurensis is distinct from all other AOA in its gene repertoire for replication, cell division and repair. Its genome has an impressive array of mobile genetic elements and other recently acquired gene sets, including conjugative systems, a provirus, transposons and cell appendages. Some of these elements indicate recent exchange with the environment, whereas others seem to have been domesticated and might convey crucial metabolic traits.

microbiology↗

bioRxiv2017

ALKALs are in vivo ligands for ALK family Receptor Tyrosine Kinases in the neural crest and derived cells.

Mutations in Anaplastic Lymphoma Kinase (ALK) are implicated in somatic and familial neuroblastoma, a paediatric tumour of neural crest-derived tissues. Recently, biochemical analyses have identified secreted small ALKAL proteins (FAM150, AUG) as potential ligands for human ALK and the related Leukocyte Tyrosine Kinase (LTK). In the zebrafish Danio rerio, DrLtk, which is similar to human ALK in sequence and domain structure, controls the development of iridophores, neural crest-derived pigment cells. Hence, the zebrafish system allows studying Alk/Ltk and Alkals involvement in neural crest regulation in vivo. Using zebrafish pigment pattern formation, Drosophila eye patterning, and cell culture-based assays, we show that zebrafish Alkals potently activate zebrafish Ltk and human ALK driving downstream signalling events. Overexpression of the three Dr Alkals cause ectopic iridophore development whereas loss of function alleles lead to spatially distinct patterns of iridophore loss in zebrafish larvae and adults. alkal loss of function triple mutants completely lack iridophores and are larval lethal as is the case for ltk null mutants. Our results provide the first in vivo evidence of (i) activation of ALK/LTK family receptors by ALKALs and (ii) an involvement of these ligand-receptor complexes in neural crest development.

developmental biology↗

bioRxiv2017

The scaffolding protein Cnk Interacts with Alk to Promote Visceral Founder Cell Specification in Drosophila

In Drosophila, the receptor tyrosine kinase Alk and its ligand Jeb are required to drive founder cell (FC) specification in the visceral mesoderm (VM). Alk-signalling activates downstream MAPK/ERK- and PI3K-pathways in human and Drosophila but little is known about immediate downstream signalling events. Here we report that the scaffolding protein Cnk interacts directly with Alk via a novel c-terminal binding motif. Cnk is required for Alk-signalling as ectopic expression of the minimal interaction motif as well as loss of maternal and zygotic cnk blocks visceral FC-formation, resembling the phenotype of jeb and Alk mutants. We also show that the Cnk-interactor Aveugle/Hyphen (Ave/HYP) is critical, while the (pseudo-) kinase Ksr is not required for Alk-signalling in the developing VM. Taken together, Cnk and Ave represent the first molecules downstream of Alk whose loss genocopies the lack of visceral FC-specification of Alk and jeb mutants indicating an essential role in Alk-signalling.

developmental biology↗