Biology subjects

Novak, J.

Publications and source records attributed to Novak, J..

17 recordsLinked to original sources

bioRxiv2026

Multimodal Imaging Reveals Spatial Host-Pathogen Microenvironments in Escherichia coli Meningoencephalitis

Experimental bacterial meningitis is often analyzed as microbial burden and inflammation, but the tissue-level organization of host-pathogen interplay remains poorly resolved. Here, we use multimodal imaging to map Escherichia coli meningoencephalitis as a spatially organized process across infected rat brain tissue and cerebrospinal fluid (CSF). A low-dose intracerebral inoculum expands within 24 h into an anatomically structured infection involving ventricular, meningeal, and perivascular interfaces. Scanning electron microscopy reveals biofilm-like multicellular E. coli aggregates embedded in extracellular material, consistent with neutrophil extracellular traps. MALDI mass spectrometry imaging detects aerobactin and salmochelin-derived metabolites, whereas intact enterobactin is not detected despite favorable analytical sensitivity. These bacterial iron-acquisition signals partially overlap with calprotectin proteoforms, defining ventricular and periventricular metal-conflict microenvironments. Spatial peptidomics identifies infection-enriched antimicrobial territories dominated by rat neutrophil peptides RatNP-2, RatNP-3, and RatNP-4. Endogenous proenkephalin-derived neuropeptides are reduced in basal ganglia regions. Finally, cerebrospinal fluid captures both bacterial siderophores and host antimicrobial peptides with lipocalin-2 protein, linking tissue-resolved host-pathogen chemistry to a proximal diagnostic fluid. Together, these data show that experimental E. coli meningoencephalitis is a spatially organized host-pathogen process. Bacterial communities, nutritional immunity, antimicrobial peptides, and neuropeptide networks occupy distinct but connected CNS niches, components of which are recoverable in CSF.

neuroscience↗

bioRxiv2026

Inhibition of p65 NF-κB enhances production of galactose-deficient IgA1 through suppression of C1GALT1 and SP1 in plasmablast-like cell subpopulations

IgA nephropathy (IgAN) is a common primary glomerulonephritis characterized by glomerular immune-complex deposits with (co)dominant IgA. These deposits are enriched for IgA1 glycoforms with some O-glycans deficient in galactose (Gd-IgA1). Circulating Gd-IgA1 is bound by IgG autoantibodies to form immune complexes, some of which deposit in glomeruli. Genomic and immunologic studies indicate involvement of pro-inflammatory signaling pathways in the production of Gd-IgA1 in IgAN. Genomic studies identified multiple genetic loci associated with IgAN and suggested a convergence on the NF-{kappa}B pathway, including RELA, the gene encoding the NF-{kappa}B subunit p65. However, the mechanisms by which NF-{kappa}B pathways may affect O-glycosylation in IgA1-producing cells are unknown. Using EBV-immortalized B cells derived from peripheral-blood mononuclear cells of IgAN patients and healthy controls that have constitutively activated NF-{kappa}B, we report that inhibition of NF-{kappa}B/p65 by a selective IKK{beta} inhibitor TPCA-1 reduced phosphorylation of NF-{kappa}B/p65 at S536 and decreased production of IgA1 and, conversely, increased Gd-IgA1 production. This was likely related to reduced expression of C1GALT1 gene that encodes the enzyme responsible for galactosylation of IgA1 O-glycans. Flow-cytometry imaging revealed changes in nuclear translocation and co-localization of the NF-{kappa}B/p65 with co-transcriptional factor SP1, a transcriptional activator of C1GALT1, suggesting that NF-{kappa}B pathway affects IgA1 O-glycosylation via SP1 transcriptional control of C1GALT1 expression. Furthermore, prolonged IKK{beta} inhibition altered B cell subpopulations, enhancing generation of cells with a plasmablast-like phenotype, characterized by high SSC MFI and CD138 expression. Together, these findings provide functional evidence for involvement of NF-{kappa}B/p65 and its transcriptional partners in IgA1 O-glycosylation. HighlightsO_LIIKK{beta} inhibition reduced C1GALT1 expression and thereby increased galactose-deficient IgA1 (Gd-IgA1) production in immortalized human B cells. C_LIO_LISP1+ subpopulations, a transcriptional activator of C1GALT1, declined after sustained NF-{kappa}B inhibition. C_LIO_LINF-{kappa}B inhibition shifted a subpopulation of B cells into a plasmablast-like phenotype. C_LIO_LIThis study links NF-{kappa}B signaling with the GWAS-identified RELA susceptibility locus and IgA1 O-glycosylation. C_LI

immunology↗

bioRxiv2025

Identification of a broad and potent V3 glycan site bNAb targeting anN332gp120 glycan-independent epitope

Broadly neutralizing antibodies (bNAbs) against HIV-1 can suppress viremia in vivo and inform vaccine development. Here, we characterized 007, a V3 glycan site bNAb exhibiting high levels of antiviral activity against multiclade pseudovirus panels1-3 (GeoMean IC50 = 0.012 {micro}g/mL, breadth = 69%, 217 virus strains) by targeting a N332gp120 glycan-independent V3 epitope, a site of Env vulnerability to which only weakly neutralizing antibodies had previously been identified. Functional analyses demonstrated distinct binding and neutralization profiles compared to classical V3 glycan site bNAbs. A 007 Fab-Env cryo-EM structure revealed contacts with the V3 324GD/NIR327 motif and interactions with N156gp120 and N301gp120 glycans. In contrast to classical V3 bNAbs, 007 binding to Env does not depend on the N332gp120 glycan, rendering it resistant to common escape mutations. Structures of 007 IgG-Env trimer complexes showed two Env trimers crosslinked by three bivalent IgGs, and bivalent 007 IgG was up to [~]300-fold more potent than monovalent 007 IgG heterodimer, suggesting a role for avidity in potent neutralization. Finally, in HIV-1ADA-infected humanized mice, 007 caused transient decline of viremia and overcame classical V3 escape mutations, highlighting 007s potential for HIV-1 prevention, therapy, functional cure, and vaccine design.

immunology↗

bioRxiv2025

Dual Role of Glycosylation in Resistance to CD4-binding Site Broadly Neutralizing Antibodies

Broadly neutralizing antibodies (bNAbs) provide a useful tool for HIV cure strategies because of their ability to target conserved regions on the envelope (Env) protein in the context of both virions and infected cells. One of the most well studied bNAbs is the CD4 binding site (CD4bs) antibody, VRC01 and others in its class. A major obstacle to effective cure strategies with bNAbs is viral immune escape. A deeper understanding of escape pathways from VRC01-class antibodies in genetically diverse samples is needed. Using an in vitro viral escape assay where infected CD4+ T cells were cultured in the presence of increasing VRC01 concentrations, complete resistance to VRC01 was detected in Env 246.F3 by day 42. We determined that resistance was due to a mutation at position N276 that resulted in elimination of the glycan-attachment site. As the loss of a glycan at this site is known to increase virus sensitivity to CD4bs antibodies, we explored this finding further. Specifically, we introduced N276D mutation into the 12-virus global Env panel and measured neutralization susceptibility to a panel of CD4bs bNAbs. This N276D mutation increased resistance or sensitivity depending on the Env and bNAb in question, emphasizing a dual role of glycan N276 in VRC01-class bNAb neutralization. The role of this glycan in escape was demonstrated to be dependent on the context of the Env, the bNAb and the glycosylation complexity of the virus due to producer cells. These findings underscore the complexity of glycosylation in genetically diverse HIV escape from antibodies. ImportanceDespite decades of research, an HIV cure remains elusive, largely due to the viruss immense genetic variability and ability to evade immune clearance. While antiretroviral therapy (ART) suppresses viral replication, it does not eradicate the virus and presents long-term challenges related to toxicity, access, and adherence. Broadly neutralizing antibodies (bNAbs), particularly those targeting the conserved CD4 binding site such as VRC01 and others in its class, offer promise for durable control or cure by targeting both circulating virus and infected cells. However, viral escape from bNAbs remains a critical hurdle. In this study, we demonstrate that glycan-mediated escape from VRC01-class bNAbs is highly context-dependent--shaped by Env, bNAb, and the glycosylation patterns introduced by the producer cell. These findings emphasize the dual role of glycans in affecting antibody sensitivity and underscore the importance of viral and host factors in shaping effective bNAb-based cure strategies across diverse HIV-1 strains.

immunology↗

bioRxiv2024

Light quantity impacts early response to cold and cold acclimation in young leaves of Arabidopsis

Plant reactions to stress vary with development stage and fitness. This study assessed the relationship between light and chilling stress in Arabidopsis acclimation. By analyzing the transcriptome and proteome responses of expanding leaves subjected to varying light intensity and cold, 2251 and 2064 early response genes and proteins were identified, respectively. Many of these represent as yet unknown part of early response to cold, illustrating development-dependent response to stress and a duality in plant adaptations. While standard light promoted photosynthetic upregulation, plastid maintenance, and increased resilience, low light triggered a unique metabolic shift, prioritizing ribosome biogenesis and lipid metabolism and attenuating expression of genes associated with plant immunity. The comparison of early response in young leaves with that in expanded ones showed striking differences, suggesting a sacrifice of expanded leaves to support young ones. Validations of selected DEGs in mutant background confirmed a role of HSP90-1, transcription factor FLZ13, and Phospholipase A1 (PLIP) in response to cold, and the PLIP family emerged as crucial in promoting acclimation and freezing stress tolerance. The findings highlight the dynamic mechanisms that enable plants to adapt to challenging environments and pave the way for the development of genetically modified crops with enhanced freezing tolerance.

plant biology↗

bioRxiv2024

Annexin A2 and lamin B join membrane recycling compartments for the assembly of biomolecular condensates operating in mitotic partitioning

Localization of the actin-, lipid- and mRNA-binding protein Annexin A2 (AnxA2) in dividing cells revealed its presence in large spherical structures which are confined to the cell periphery and frequently co-align with astral microtubules. These structures emerge at prometaphase and disappear at telophase, coinciding with the mitotic breakdown and reformation of the nuclear envelope, respectively. Their size increases towards anaphase, while their number decreases, indicating that they are capable of fusion. Treatment of cells with propylene glycol caused rapid and reversible disassembly of the structures, providing additional evidence that they correspond to biomolecular condensates. Interestingly, the condensates contain compartments operating in biosynthetic or endocytic membrane recycling - defined by Rab1, Rab11 or endocytosed transferrin - but are devoid of other membrane organelles, implying that they constitute a mitotic reservoir for selected endomembranes. They also contain lamin B, which connects with the pericentrosomal membrane recycling compartments at prometaphase, when the nuclear lamina breaks down in parallel with centrosome separation. These results suggest that the peripheral condensates correspond to the enigmatic membranous spindle matrix implicated in spindle organization and organelle inheritance. The separating daughter cells at late anaphase contain equal numbers of the condensates, in accordance with their role in mitotic partitioning of endomembranes and other cytoplasmic components.

cell biology↗

bioRxiv2024

First endangered black-footed ferrets, Mustela nigripes, cloned for genetic rescue

An endangered black-footed ferret female that died in 1988 with no living descendants in the current population was successfully cloned from cryopreserved cells using cross-species somatic cell nuclear transfer, producing three healthy kits. Incorporating progeny from these clones would provide an 8th founder to the breeding program and increase genetic variation to the species limited gene-pool. This marks the first time a native U.S. endangered species has been cloned.

zoology↗

bioRxiv2024

Striated fibre assemblins localise in the feeding groove of the 'typical excavate' Paratrimastix pyriformis

The spatial arrangement of microtubules in the cytoskeleton in the cells of protists has been used for decades for taxonomy and phylogenetic inference at various levels. In contrast, the protein composition of non-microtubular structures is mostly unknown. Exceptions are system I fibers in algae, which are built of striated fiber assemblins (SFAs). Interestingly, SFAs are also components of a range of other, dissimilar structures, playing a role in the cortex of ciliates, cell division in apicomplexans, and adhesion of the parasite Giardia to the intestine. In a broad bioinformatic survey, we show the existence of three ancestral eukaryotic paralogs of SFA, and note that they are present in all "typical excavates": small heterotrophic flagellates bearing a ventral feeding groove. In one representative, Paratrimastix pyriformis, we detected two SFA paralogs using specific antibodies and expansion microscopy. We show that they co-localize selectively with several microtubules and structures attached to the basal body of the posterior flagellum, namely the right microtubular root, B-fiber, C-fiber, and composite fiber. We demonstrate that one of the paralogs self-assembles in vitro into striated filaments which, under negative staining and cryo-electron microscopy, resemble system I fibers as seen in previous studies. Given the facts that all three SFA paralogs appear to be ancestral to most eukaryotic lineages, as is probably the morphology of "typical excavates" with a ventral groove, we speculate that these proteins played roles in the support and development of the feeding apparatus of the last eukaryotic common ancestor. SIGNIFICANCE STATEMENTWe identified three paralogues of intermediate filament-like proteins from the family of striated fiber assemblins in the Last Eukaryotic Common Ancestor (LECA). Using expansion microscopy, we demonstrated that two of these proteins form a complex cytoskeleton that supports the feeding groove of Paratrimastix pyriformis. It is widely accepted that this flagellated protist retains the morphological and feeding characteristics of ancestral eukaryotes. Therefore, our results suggest that the striated fiber assemblin proteins, which form diverse structures in various extant eukaryotes, were initially components of the feeding apparatus in LECA.

microbiology↗

bioRxiv2024

Relationship between extreme species richness and Holocene persistence of forest-steppe grasslands in Transylvania, Romania

The most species-rich grasslands worldwide are known from the Carpathian Mts and their periphery in East-Central Europe. They occur in forest-steppe regions, transitional between temperate forest and arid steppe biomes. Their climate, largely suitable for forests, raises questions about the origin of these grasslands. Have they been forested in the past, or locally maintained through a disturbance regime? We addressed these questions to contribute to the broader understanding of Holocene dynamics of open habitats in temperate Europe. We employed soil charcoal analysis and soil morphology to reconstruct past representation of woody species with fine spatial resolution. Our study area was Romanian Transylvania, a region renowned for a well-developed forest-steppe. Six soil profiles along a climatic gradient were assessed: four in forest-steppe grasslands, two in grasslands in adjacent forest region. The results revealed profound differences between forest-steppe and forest grasslands. Forest-steppe profiles showed Phaeozems with low specific anthracomass and continuous dominance by Juniperus, suggesting a long-term presence of grasslands. Forest profiles showed Luvisols with higher anthracomass and abundant charcoal of broad-leaved trees, indicating establishment after deforestation. The high radiocarbon ages of charcoals in basal soil horizons point to a glacial origin of soils and the link of forest-steppe grasslands to glacial forests. Siberian hemiboreal forests and related grasslands may be modern analogues of the reconstructed ecosystems, sharing many species with present day forest-steppe. We highlight the role of disturbances such as fire, herbivore grazing, and human activities in shaping the forest-steppe over time, contributing to the formation of todays richest grasslands.

ecology↗

bioRxiv2023

Topological stress triggers difficult-to-repair DNA lesions in ribosomal DNA with ensuing formation of PML-nucleolar compartment

PML, a multifunctional protein, is crucial for forming PML-nuclear bodies involved in stress responses. Under specific conditions, PML associates with nucleolar caps formed after RNA polymerase I (RNAPI) inhibition, leading to PML-nucleolar associations (PNAs). This study investigates PNAs-inducing stimuli by exposing cells to various genotoxic stresses. We found that the most potent inducers of PNAs introduced topological stress and inhibited RNAPI. Doxorubicin, the most effective compound, induced double-strand breaks (DSBs) in the rDNA locus. PNAs co-localized with damaged rDNA, segregating it from active nucleoli. Cleaving the rDNA locus with I-PpoI confirmed rDNA damage as a genuine stimulus for PNAs. Inhibition of ATM, ATR kinases, and RAD51 reduced I-PpoI-induced PNAs, highlighting the importance of ATM/ATR-dependent nucleolar cap formation and homologous recombination (HR) in their triggering. I-PpoI-induced PNAs co-localized with rDNA DSBs positive for RPA32-pS33 but deficient in RAD51, indicating resected DNA unable to complete HR repair. Our findings suggest that PNAs form in response to persistent rDNA damage within the nucleolar cap, highlighting the interplay between PML/PNAs and rDNA alterations due to topological stress, RNAPI inhibition, and rDNA DSBs destined for HR. Cells with persistent PNAs undergo senescence, suggesting PNAs help avoid rDNA instability, with implications for tumorigenesis and aging.

cell biology↗

bioRxiv2023

Proposed Methodology for Reducing Bias in Structural MRI Analysis in the Presence of Lesions: Data from a Pediatric Traumatic Brain Injury Cohort

Traumatic brain injury can lead to multiple pathologic features, including brain lesions, which are visible on magnetic resonance imaging (MRI). These resulting heterogenous lesions can present a difficulty for several standard approaches to neuroimaging, resulting in bias and error in subsequent quantitative measurements. Thus, cases presenting with lesions on MRI may be excluded from analyses, biasing samples across the research field. We outline a potential solution to this issue in the case of Freesurfer, a popular neuroimaging tool for surface-based segmentation of brain tissue from structural MRI. The proposed solution involves two-steps, a) Pre-processing: Enantiomorphic Lesion-Filling and b) Post-processing: Lesion Labelling. We applied this methodology to 14 pediatric TBI cases which presented with lesions on T1w MRI. Following qualitative inspection of these cases after implementation of the approach, 8 out of 14 cases were retained as being of sufficient quality. In brief, we have presented here an adapted pipeline for processing structural MRI (sMRI) of patients who have experienced a TBI using the Freesurfer software package. This approach aims to mitigate potential lesion-induced biases that exist beyond the locality of the pathological tissue, even in the contralesioned hemisphere.

neuroscience↗

bioRxiv2023

The regulatory role of the CD2AP/TKS4 interaction in EMT and its potential as abiomarker for colon cancer

BackgroundColon cancer is a leading cause of death worldwide. Although several biomarkers have been developed, more sensitive and specific methods are needed for its early detection. TKS4 and CD2AP scaffold proteins have been already linked to dynamic actin assembly-related processes, such as colon cancer cell migration, although their co-instructive role during tumour-formation remains unknown. Therefore, this study was designed to validate TKS4-CD2AP interaction and study the interdependent effect of TKS4/CD2AP on oncogenic events. MethodsCD2AP was identified as a novel TKS4 interacting partner in six cell lines via co-immunoprecipitation-mass spectrometry. The interaction was validated via western blot, immunocytochemistry, DuoLink assay and peptide microarray. Gene silencing and overexpressing experiments were performed to uncover the cooperative effects of TKS4 and CD2AP in cell movement and in epithelial-mesenchymal transition (EMT). The expression levels of TKS4 and CD2AP mRNAs were quantified using a human colon cancer array, and the results were subjected to bioinformatic database analysis. ResultsThe molecular biology analysis revealed that one of the SH3-domain of CD2AP interacts with a proline-rich short linear motif in TKS4. Functional studies showed that TKS4 and CD2AP form a scaffold complex that regulates migration- and EMT-related pathways of colon cancer cells. The relative TKS4 and CD2AP expression level measurements pointed out that CD2AP/TKS4 ratio is a sensitive biomarker for the identification of tumorous colon tissue. ConclusionsThis is the first study demonstrating the TKS4-CD2AP protein-protein interaction in vitro and in vivo and their interdependent regulative effect on mesenchymal transition-like process in colon cancer. Furthermore, the results highlight that the relative expression levels of CD2AP and TKS4 might serve as a biomarker for the diagnosis of early-stage colon cancer.

cancer biology↗

bioRxiv2022

Rearing environment persistently modulates the phenotype of mice

The phenotype of an organism results from its genotype and the influence of the environment throughout development. Even when using animals of the same genotype, independent studies may test animals of different phenotypes, resulting in poor replicability due to genotype-by-environment interactions 1-4. Thus, genetically defined strains of mice may respond differently to experimental treatments depending on their rearing environment 5. However, the extent of such phenotypic plasticity and its implications for the replicability of research findings have remained unknown. Here, we examined the extent to which common environmental differences between rearing facilities modulate the phenotype of genetically homogeneous (inbred) mice. We conducted a comprehensive multi-center study, where inbred mice from the same breeding stock were reared in five different facilities throughout early life and adolescence, before being transported to a single test laboratory. We found persistent effects of rearing facility on the composition and heterogeneity of the gut microbial community. These effects were paralleled by persistent differences in body weight and in the behavioural phenotype of the mice. Furthermore, we show that common variation among rearing facilities is strong enough to influence epigenetic patterns in neurons at the level of chromatin organization. We detected changes in chromatin organization in the regulatory regions of genes involved in nucleosome assembly, neuronal differentiation, synaptic plasticity and regulation of behavior. Our findings demonstrate that common environmental differences between rearing facilities may produce facility-specific phenotypes, from the molecular to the behavioural level. We expect our findings to stimulate further research into the mechanisms and drivers of these epigenetic changes mediated by the laboratory environment. Furthermore, they highlight an important limitation of inferences from single-laboratory studies and a need to account for the animals environmental background in study design to produce robust and replicable findings.

neuroscience↗

bioRxiv2021

Pre- and post-mating reproductive isolation evolve independently during rapid adaptation to high temperature

BackgroundEcological speciation and mutation-order speciation are two different mechanisms of adaptation-driven speciation. Both mechanisms predict different patterns of reproductive isolation for replicate populations adapting to the same environment. With ecological speciation, barriers to gene flow emerge between populations from different environments, but not among replicate populations from the same environment. Mutation-order speciation predicts reproductive isolation among populations adapted to the same environment. ResultsWe demonstrate that both speciation processes occurred within about 100 generations when replicate Drosophila simulans populations adapted to a novel, hot environment. Gene expression analysis identified the underlying molecular mechanisms. Premating ecological speciation is the byproduct of an altered lipid metabolism, which also changed the cuticular hydrocarbon (CHC) composition in hot-evolved flies. Postmating reproductive isolation supports mutation-order speciation most likely driven by co-evolution of reproduction-associated genes. ConclusionAdaptation processes can rapidly induce incipient speciation and different speciation mechanisms affect pre- and postmating reproductive isolation. We propose that the definition of mutation-order speciation should be expanded to account for polygenic processes from standing genetic variation.

evolutionary biology↗

bioRxiv2021

Biological Factors and Self-Perception of Stress Predict Human Freeze-Like Responses in the Context of Self-Defence Training and Personal Experience with Violence

Many animals react to threatening stimuli such as a predator attacks by freezing. However, little experimental research investigated freeze response in humans. Here, we have employed practices commonly used in self-defence training to create two unique scenarios simulating armed physical attacks. Sixty healthy men volunteers divided into three groups of twenty (untrained, trained but unexperienced, trained and experienced) underwent these scenarios accompanied by measurement of biochemical, physiological, and psychological markers of stress. All participants also underwent an fMRI session during which they observed neutral and negative images from the International Affective Picture System (IAPS). Our results show that scenarios simulating physical attacks can induce a freeze-like response in men. In addition, we demonstrate that while electrodermal activity (EDA), subjective stress perception, and brain activity in fMRI predict freeze-like response in men, their effect on freeze-like response is entirely dependent on the level of training and experience of a given individual.

neuroscience↗

bioRxiv2020

Impact of glycan positioning on HIV-1 Env glycan shield density, function, and antibody recognition

N-glycans, which represent >50% mass of the HIV-1 envelope (Env) trimer, play important roles for virus-cell entry and immune evasion. How each glycan unit interacts to shape the Env protein-sugar complex and affects Env function is not well understood. Here, high-resolution glycomics analysis of two Env variants from the same donor, with differing functional characteristics and N-glycosylation-site composition, revealed that changes to key N-glycosylation-site not only affected the Env structure at distant locations, but also had a ripple effect on Env-wide glycan processing, virus infectivity, and antibody recognition and virus neutralization. Specifically, the N262 glycan, although not located in the CD4-binding site, controlled Env binding to the CD4 receptor, affected the recognition of Env by several glycan-dependent broadly neutralizing antibodies, and altered heterogeneity of glycosylation at several sites, with N156, N160, and N448 displaying limited glycan processing. Molecular dynamic simulations visualized how specific oligosaccharide positions can move to compensate for loss of a glycan. This study demonstrates how changes in individual glycan units can alter molecular dynamics and processing of the Env-glycan shield and, consequently, Env function.

microbiology↗

bioRxiv2018

Transcription apparatus of the yeast killer DNA plasmids: Architecture, function, and evolutionary origin

Transcription of extrachromosomal elements such as organelles, viruses, and plasmids is dependent on cellular RNA polymerase (RNAP) or intrinsic RNAP encoded by these elements. The yeast Kluyveromyces lactis contains killer DNA plasmids that bear putative non-canonical RNAP genes. Here, we describe the architecture and evolutionary origin of this transcription machinery. We show that the two RNAP subunits interact in vivo, and this complex interacts with another two plasmid-encoded proteins - the mRNA capping enzyme, and a putative helicase which interacts with plasmid-specific DNA. Further, we identify a promoter element that causes 5 polyadenylation of plasmid-specific transcripts via RNAP slippage during transcription initiation, and structural elements that precede the termination sites. As a result, we present a first model of the yeast killer plasmid transcription initiation and intrinsic termination. Finally, we demonstrate that plasmid RNAP and its promoters display high similarity to poxviral RNAP and promoters of early poxviral genes, respectively.

molecular biology↗