Recombinant Rickettsia canadensis Ribosome-recycling factor (frr)

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Product Specs

Form
Lyophilized powder. We will preferentially ship the available format. If you have special format requirements, please note them when ordering.
Lead Time
Delivery time varies by purchase method and location. Consult your local distributor for specific delivery times. All proteins are shipped with blue ice packs by default. For dry ice shipping, contact us in advance (extra fees apply).
Notes
Avoid repeated freeze-thaw cycles. Working aliquots are stable at 4°C for up to one week.
Reconstitution
Briefly centrifuge the vial before opening. Reconstitute in sterile deionized water to 0.1-1.0 mg/mL. Add 5-50% glycerol (final concentration) and aliquot for long-term storage at -20°C/-80°C. Our default final glycerol concentration is 50%.
Shelf Life
Shelf life depends on storage conditions, buffer components, temperature, and protein stability. Liquid form: 6 months at -20°C/-80°C. Lyophilized form: 12 months at -20°C/-80°C.
Storage Condition
Store at -20°C/-80°C upon receipt. Aliquot for multiple uses. Avoid repeated freeze-thaw cycles.
Tag Info
Tag type is determined during manufacturing. If you require a specific tag, please inform us, and we will prioritize its development.
Synonyms
frr; A1E_00790; Ribosome-recycling factor; RRF; Ribosome-releasing factor
Buffer Before Lyophilization
Tris/PBS-based buffer, 6% Trehalose.
Datasheet
Please contact us to get it.
Expression Region
1-186
Protein Length
full length protein
Purity
>85% (SDS-PAGE)
Species
Rickettsia canadensis (strain McKiel)
Target Names
frr
Target Protein Sequence
MDTETLKKNL QEKMEKALKV LDHELKGLRT GRASVNLLDS VIVEAYGSKI PLSQVASIST PDARTINVQV WDKSMVSLVE KGITIANLGL TPATDGQLIR LPIPILTEER RKELVKLAHK YGEDTKISLR NIRRDGNEEL KKLEKNNILT KDEHHSLSEQ VQKLTNDYSN KVDSAIKQKE QEIMTV
Uniprot No.

Target Background

Function
Releases ribosomes from mRNA at the termination of protein biosynthesis. May improve translation efficiency by recycling ribosomes.
Database Links
Protein Families
RRF family
Subcellular Location
Cytoplasm.

Q&A

What is the role of Ribosome-recycling factor (frr) in Rickettsia canadensis?

Ribosome-recycling factor (frr) in Rickettsia canadensis plays a crucial role in the final step of protein synthesis. Similar to RRF in other bacteria like E. coli, the frr protein functions by disassembling the post-termination complex after protein synthesis has been completed. This recycling process involves removing mRNA and tRNA from the ribosome, making it available for the next round of translation . This function is essential for the viability of the organism as it enables continuous protein synthesis, which is fundamental to bacterial survival and replication.

The process functions as follows: frr, in conjunction with elongation factor G (EF-G), binds to the ribosome and promotes the release of tRNAs through a movement similar to tRNA translocation. After tRNAs leave, frr, EF-G, and mRNA also detach from the ribosome. The released ribosome is then free to start a new session of protein synthesis . This mechanism is highly conserved among prokaryotes but differs significantly from eukaryotic systems, making it a potential target for antimicrobial development.

How does Rickettsia canadensis frr compare structurally to other bacterial RRFs?

Rickettsia canadensis frr shares structural similarities with other bacterial ribosome-recycling factors, particularly in its L-shaped configuration that mimics the structure of tRNA. This structural mimicry is functionally significant as it allows frr to interact with the ribosome in a manner similar to tRNA .

The frr protein typically consists of two domains: a triple-stranded α-helical bundle and a three-stranded β-sheet domain. These domains are connected by a hinge region that allows for conformational flexibility during interaction with the ribosome. When bound to the ribosome, frr causes significant conformational changes in key ribosomal helices, particularly those that hold mRNA. These structural movements are essential for the mRNA release function of frr .

Compared to RRF in other rickettsia species, R. canadensis frr likely maintains high sequence conservation in functional domains while potentially having species-specific variations that reflect its evolutionary adaptation within the Rickettsia genus, which is known for its diverse genomic characteristics and mobile genetic elements .

What are the standard methods for cloning and expressing recombinant Rickettsia canadensis frr?

Standard methods for cloning and expressing recombinant Rickettsia canadensis frr typically involve:

  • Gene Identification and Isolation:

    • PCR amplification of the frr gene from R. canadensis genomic DNA

    • Design of specific primers based on the known genome sequence

    • Verification of the amplified product by sequencing

  • Cloning Strategy:

    • Insertion into an expression vector with appropriate regulatory elements

    • Common vectors include pET systems for E. coli expression

    • Addition of affinity tags (His6, GST) for purification purposes

  • Expression Systems:

    • E. coli BL21(DE3) or similar strains optimized for protein expression

    • Induction conditions: typically IPTG induction at concentrations of 0.1-1.0 mM

    • Growth temperature optimization (often 16-30°C) to maximize soluble protein yield

  • Purification Protocol:

    • Affinity chromatography using the attached tag

    • Ion exchange chromatography for further purification

    • Size exclusion chromatography for final polishing and buffer exchange

  • Activity Verification:

    • In vitro ribosome binding assays

    • Functional recycling assays measuring release of mRNA and tRNA from post-termination complexes

When expressing Rickettsia proteins in heterologous systems, special attention must be paid to codon optimization and potential toxicity issues that may arise from expressing proteins involved in fundamental cellular processes .

What techniques are effective for studying the interaction between frr and ribosomes in Rickettsia canadensis?

Several effective techniques for studying the interaction between frr and ribosomes in Rickettsia canadensis include:

  • Cryo-electron Microscopy (Cryo-EM):

    • Provides high-resolution structural information of the frr-ribosome complex

    • Allows visualization of conformational changes in both frr and the ribosome upon binding

    • Has been successfully used to visualize RRF-ribosome complexes in other bacteria

  • Chemical Probing:

    • Identifies ribosomal sites that become protected or exposed upon frr binding

    • Hydroxyl radical footprinting can map the binding interface

    • DMS and CMCT probing can reveal changes in RNA accessibility

  • Biochemical Assays:

    • Filter binding assays to measure binding affinity

    • GTPase assays to measure EF-G-dependent activity of frr

    • Polysome profile analysis to monitor ribosome recycling efficiency

  • Fluorescence-based Techniques:

    • FRET (Förster Resonance Energy Transfer) to monitor real-time interactions

    • Fluorescence anisotropy to measure binding kinetics

    • Single-molecule FRET to observe individual recycling events

  • Genetic Approaches:

    • Site-directed mutagenesis to identify critical residues

    • Complementation studies in RRF-depleted systems

    • Suppressor analysis to identify functional partners

These techniques can be combined to provide comprehensive insights into how frr interacts with the ribosome and how this interaction leads to the disassembly of the post-termination complex, similar to studies done with E. coli RRF .

How do mobile genetic elements influence the evolution of the frr gene in Rickettsia species?

Mobile genetic elements (MGEs) play a significant role in shaping the genome architecture and gene evolution in Rickettsia species, potentially including the frr gene. In Rickettsia endosymbiont of Ixodes scapularis (REIS), approximately 35% of the genome encodes products related to the microbial mobile gene pool . This high proportion of MGEs may contribute to genetic diversity and functional adaptation of essential genes like frr across Rickettsia species.

The Rickettsiales amplified genetic element (RAGE), identified in both REIS and Orientia tsutsugamushi, represents a significant MGE that may influence gene acquisition and evolution . Evidence suggests that conserved rickettsial genes associated with intracellular lifestyle were acquired via MGEs, especially through RAGE . This horizontal gene transfer mechanism could potentially affect the evolution of translation-related genes like frr.

Comparative genomic analysis between different Rickettsia species reveals varying degrees of synteny, partly due to the differential proliferation of MGEs . This genomic plasticity might result in species-specific adaptations of the frr gene, potentially influencing its functionality or regulation. Researchers investigating frr evolution should consider:

  • Analyzing flanking regions of the frr gene for evidence of MGE insertion

  • Performing phylogenetic analysis to identify potential horizontal gene transfer events

  • Comparing frr sequence conservation across Rickettsia species with varying MGE content

  • Examining the relationship between MGE abundance and frr gene duplication or modification

Understanding these evolutionary dynamics is crucial for interpreting functional differences in frr across Rickettsia species and may provide insights into host adaptation mechanisms.

What are the challenges in developing assays to measure the enzymatic activity of recombinant Rickettsia canadensis frr?

Developing robust assays to measure the enzymatic activity of recombinant Rickettsia canadensis frr presents several significant challenges:

  • Reconstitution of the Complete Recycling System:

    • Requirement for purified ribosomes, EF-G, and post-termination complexes

    • Need to coordinate multiple components in precise stoichiometric ratios

    • Maintaining physiologically relevant conditions (pH, ion concentrations)

  • Detection Sensitivity and Specificity:

    • Distinguishing between spontaneous and frr-mediated ribosome recycling

    • Developing reporter systems that accurately reflect recycling events

    • Minimizing background noise in complex in vitro systems

  • Kinetic Considerations:

    • Measuring rapid transient interactions in real-time

    • Accounting for potential cooperative effects with other factors

    • Establishing appropriate enzyme-to-substrate ratios

  • Species-Specific Factors:

    • Potential requirement for Rickettsia-specific ribosomal components

    • Accounting for differences between Rickettsia and model organism systems

    • Identifying optimal conditions specific to R. canadensis proteins

A comprehensive enzymatic assay typically includes:

Assay ComponentConcentration RangePurpose
Purified frr0.1-1 μMCatalytic component
EF-G0.1-1 μMCo-factor for recycling
Post-termination complexes0.2-0.5 μMSubstrate
GTP1-2 mMEnergy source
Mg²⁺5-10 mMStabilizes ribosomal structure
K⁺50-100 mMPromotes proper ionic environment

Researchers must carefully optimize these parameters while implementing appropriate controls to distinguish between frr-specific activity and background reactions .

How might the function of frr in Rickettsia canadensis differ from that in other intracellular pathogens regarding virulence mechanisms?

The function of frr in Rickettsia canadensis may play a unique role in virulence compared to other intracellular pathogens, potentially through interactions with host immunity and bacterial survival mechanisms.

In Rickettsia species, virulence determinants like RARP2 and RapL have been shown to mitigate host immune responses, specifically interferon-β (IFN-β) signaling in human cells . While frr's primary function is ribosome recycling, its efficiency could indirectly impact the expression of virulence factors, thereby influencing pathogenicity. The ribosome recycling process is essential for efficient translation, which underpins the production of all bacterial proteins, including virulence factors.

Differences in frr function between Rickettsia canadensis and other intracellular pathogens might manifest in several ways:

  • Translational Efficiency Impact:

    • More efficient frr activity could enhance production of immune evasion factors

    • Differences in recycling rates might affect the timing of virulence factor expression

    • Specialized adaptation of frr might allow translation under stress conditions within host cells

  • Host-Pathogen Interface:

    • R. canadensis frr might have evolved species-specific features to function optimally within its particular host environment

    • The efficiency of frr could influence bacterial growth rates within host cells, affecting virulence

    • Potential moonlighting functions of frr beyond its canonical role in translation

  • Stress Response Integration:

    • R. canadensis frr may function differently under host-induced stress conditions

    • Potential regulatory mechanisms linking translation efficiency to virulence expression

    • Cross-talk between ribosome recycling and bacterial adaptation to intracellular environments

What strategies can be employed to study the effects of frr mutations on Rickettsia canadensis fitness and virulence?

Studying the effects of frr mutations on Rickettsia canadensis fitness and virulence requires sophisticated experimental approaches due to the obligate intracellular lifestyle of these bacteria. Several strategies can be employed:

  • Targeted Mutagenesis Approaches:

    • Site-directed mutagenesis targeting conserved functional residues in frr

    • Construction of conditional mutants using inducible promoters

    • Complementation studies with wild-type and mutant frr alleles

    • CRISPR-Cas9 genome editing adapted for Rickettsia systems

  • Cellular Infection Models:

    • Comparison of mutant vs. wild-type R. canadensis in human microvascular endothelial cells

    • Quantification of intracellular growth rates and cytopathic effects

    • Assessment of host cell survival similar to studies with R. rickettsii

    • Monitoring of host immune responses (IFN-β production, STAT phosphorylation)

  • Comparative Transcriptomics and Proteomics:

    • RNA-Seq analysis to identify differentially expressed genes in frr mutants

    • Proteomic profiling to assess global translation effects

    • Ribosome profiling to examine translation efficiency changes

    • Targeted analysis of virulence factor expression

  • In Vivo Models:

    • Animal infection studies comparing wild-type and frr mutant strains

    • Tissue-specific bacterial burden quantification

    • Histopathological examination of infected tissues

    • Immune response characterization in vivo

Experimental ApproachKey ParametersExpected Outcomes
Growth kineticsDoubling time, maximum yieldReduced growth rate in attenuated mutants
Host cell viabilityLDH release, apoptosis markersCorrelation between frr function and cytopathic effect
Immune responseIFN-β secretion, ISG expressionAltered immune evasion capabilities
Virulence factor expressionRARP2, RapL levelsTranslational impact on known virulence determinants

Similar to studies with R. rickettsii virulence factors , creating recombinant strains expressing different frr alleles could help identify specific mutations affecting virulence while monitoring parameters such as host cell survival and immune response modulation.

How can structural biology approaches be used to design inhibitors targeting Rickettsia canadensis frr?

Structural biology approaches offer powerful tools for designing selective inhibitors targeting Rickettsia canadensis frr, exploiting the differences between bacterial and human ribosome recycling mechanisms. This strategy could lead to novel antimicrobials with reduced side effects .

  • Structure Determination Methods:

    • X-ray crystallography of purified R. canadensis frr

    • Cryo-electron microscopy of frr-ribosome complexes

    • NMR spectroscopy for dynamic interaction studies

    • Hydrogen-deuterium exchange mass spectrometry to identify flexible regions

  • Structure-Based Drug Design Pipeline:

    • Identification of druggable pockets unique to bacterial frr

    • Virtual screening of compound libraries against these pockets

    • Fragment-based approaches to identify initial chemical scaffolds

    • Structure-activity relationship studies for lead optimization

  • Targeting Strategies:

    • Inhibition of frr-ribosome binding interface

    • Disruption of conformational changes required for activity

    • Allosteric inhibition affecting frr-EFG interactions

    • Stabilization of frr in non-functional conformations

  • Validation Approaches:

    • In vitro binding assays to confirm target engagement

    • Ribosome recycling inhibition assays

    • Cell-based assays measuring translation efficiency

    • Bacterial growth inhibition studies

Design StrategyAdvantageChallenge
Active site targetingDirect inhibition of functionHigh conservation may reduce selectivity
Allosteric inhibitionGreater potential for selectivityMore complex structure-activity relationships
Interface disruptionPrevents key protein-protein interactionsRequires detailed knowledge of binding interfaces
Covalent inhibitorsPotentially higher potencyRisk of off-target reactivity

The key to successful inhibitor design lies in exploiting the structural differences between bacterial frr and its human mitochondrial counterpart. As noted with other ribosomal targeting antibiotics, such selective targeting is feasible despite the presence of mitochondrial translation machinery . Molecular dynamics simulations can further enhance understanding of frr dynamics and inform rational drug design approaches.

What are the optimal conditions for expressing and purifying functional recombinant Rickettsia canadensis frr?

Optimizing the expression and purification of functional recombinant Rickettsia canadensis frr requires careful consideration of multiple parameters to ensure high yield and biological activity:

  • Expression System Selection:

    • E. coli BL21(DE3) strain is commonly used for initial expression attempts

    • Alternative strains like Rosetta or Arctic Express may improve folding of problematic proteins

    • Baculovirus-insect cell systems can be employed if bacterial expression fails

    • Cell-free expression systems allow for rapid optimization and toxic protein production

  • Vector Design Considerations:

    • N-terminal vs. C-terminal affinity tags based on structural predictions

    • Inclusion of TEV or PreScission protease sites for tag removal

    • Codon optimization for the expression host

    • Use of solubility-enhancing fusion partners (MBP, SUMO, TrxA)

  • Expression Condition Optimization:

ParameterRange to TestNotes
Induction temperature16-37°CLower temperatures often increase solubility
IPTG concentration0.1-1.0 mMLower concentrations may improve folding
Media compositionLB, TB, M9Richer media can increase yield
Induction timingOD₆₀₀ = 0.4-1.0Earlier induction sometimes improves solubility
Expression duration3-24 hoursExtended times at lower temperatures often optimal
  • Purification Strategy:

    • Initial capture using affinity chromatography (Ni-NTA, GST)

    • Intermediate purification via ion exchange chromatography

    • Polishing step using size exclusion chromatography

    • Buffer optimization to maintain stability (typically 20-50 mM Tris or HEPES, pH 7.5, 100-300 mM NaCl, 5-10% glycerol)

  • Activity Preservation:

    • Addition of stabilizing agents (glycerol, arginine, glutamic acid)

    • Flash-freezing small aliquots in liquid nitrogen

    • Storage at -80°C with minimal freeze-thaw cycles

    • Activity testing before and after storage to confirm stability

For Rickettsia proteins specifically, special attention should be paid to potential toxicity issues, as proteins involved in fundamental processes like translation may interfere with host cell function. Using tightly controlled inducible systems and optimizing growth conditions can help overcome these challenges .

What bioinformatic approaches are most effective for analyzing frr sequence conservation across Rickettsia species?

Effective bioinformatic approaches for analyzing frr sequence conservation across Rickettsia species involve multiple complementary methods:

  • Sequence Alignment and Conservation Analysis:

    • Multiple Sequence Alignment (MSA) using MUSCLE, MAFFT, or Clustal Omega

    • Conservation scoring using methods like Jensen-Shannon divergence

    • Visualization with tools like Jalview or WebLogo

    • Identification of absolutely conserved residues versus variable regions

  • Phylogenetic Analysis:

    • Maximum Likelihood methods using RAxML or IQ-TREE

    • Bayesian inference using MrBayes or BEAST

    • Selection of appropriate evolutionary models (e.g., WAG, LG for proteins)

    • Tree visualization and annotation with FigTree or iTOL

  • Structural Conservation Mapping:

    • Homology modeling based on known RRF structures

    • Mapping conservation scores onto 3D structures

    • Identification of conserved functional domains

    • Prediction of conserved binding interfaces

  • Coevolution Analysis:

    • Detection of coevolving residues using methods like PSICOV or DCA

    • Identification of potential functional networks within the protein

    • Correlation with known functional regions from experimental data

    • Prediction of residue interactions important for function

  • Comparative Genomic Context Analysis:

    • Examination of flanking genes and operon structure

    • Analysis of regulatory regions across species

    • Detection of potential horizontal gene transfer events

    • Comparison with mobile genetic element distribution

Analysis TypeToolsPrimary Insight
Sequence conservationConSurf, JalviewFunctionally critical residues
Selective pressurePAML, HyPhySites under positive/negative selection
Structural mappingPyMOL, UCSF ChimeraSpatial arrangement of conserved sites
Genomic contextMicrobesOnline, DOOROperon structure and potential co-regulation

When analyzing Rickettsia frr sequences, it's particularly important to consider the influence of mobile genetic elements, which are prevalent in the genomes of these bacteria and can affect gene evolution . Integration of these bioinformatic approaches provides a comprehensive understanding of frr conservation patterns and evolutionary dynamics across Rickettsia species.

How can researchers distinguish between direct and indirect effects when studying frr function in Rickettsia canadensis?

Distinguishing between direct and indirect effects when studying frr function in Rickettsia canadensis requires carefully designed experimental approaches:

  • Genetic Complementation Strategies:

    • Generation of conditional knockdowns or temperature-sensitive mutants

    • Complementation with wild-type frr versus mutant variants

    • Rescue experiments with heterologous frr proteins from related species

    • Time-course experiments to establish causality of observed phenotypes

  • Biochemical Separation of Functions:

    • In vitro reconstitution of ribosome recycling with purified components

    • Site-directed mutagenesis targeting specific functional domains

    • Pull-down assays to identify direct interaction partners

    • Competition assays to confirm specificity of interactions

  • Temporal Resolution Approaches:

    • Time-resolved experiments following frr inactivation

    • Pulse-chase studies to track ribosome recycling in real-time

    • Kinetic analysis of primary versus secondary effects

    • Metabolic labeling to distinguish immediate from delayed consequences

  • Systems Biology Integration:

    • Multi-omics approaches (transcriptomics, proteomics, metabolomics)

    • Network analysis to identify direct versus downstream effects

    • Mathematical modeling of translation dynamics

    • Pathway enrichment analysis to contextualize observed changes

  • Controlled Experimental Designs:

    • Inclusion of appropriate negative and positive controls

    • Use of catalytically inactive frr mutants as controls

    • Dose-response experiments to establish causality

    • Parallel studies in simplified in vitro systems versus cellular contexts

Experimental ApproachDirect Effect EvidenceIndirect Effect Indicator
Kinetic analysisRapid response after frr perturbationDelayed response suggesting intermediate steps
Biochemical reconstitutionReproducible with purified componentsRequires additional cellular factors
Protein-protein interactionPhysical association with frrFunctional change without direct interaction
Genetic rescueComplete rescue with wild-type frrPartial rescue suggesting compensatory mechanisms

When studying intracellular pathogens like Rickettsia, it's particularly challenging to separate direct frr effects from broader impacts on translation and cellular physiology. Researchers should consider that virulence determinants like RARP2 and RapL in Rickettsia species can influence multiple cellular pathways , creating complex phenotypes that require careful experimental dissection.

What are the best approaches for developing high-throughput screening assays to identify inhibitors of Rickettsia canadensis frr?

Developing high-throughput screening (HTS) assays for identifying inhibitors of Rickettsia canadensis frr requires robust, reproducible, and miniaturizable assay formats:

  • Primary Screening Assay Formats:

    • Fluorescence-based Recycling Assays:

      • Fluorescently labeled mRNA or tRNA release monitoring

      • FRET-based systems detecting ribosomal subunit dissociation

      • Real-time fluorescence polarization to track binding events

    • Bioluminescence-based Approaches:

      • Coupled luminescent assays measuring ATP consumption

      • Reporter systems linked to recycling efficiency

      • Split-luciferase complementation for monitoring protein-protein interactions

    • Label-free Technologies:

      • Surface plasmon resonance for binding kinetics

      • Thermal shift assays (DSF) for protein stabilization/destabilization

      • Isothermal titration calorimetry for thermodynamic profiling

  • Assay Development and Validation Steps:

ParameterAcceptable RangeNotes
Z' factor>0.5Statistical measure of assay quality
Signal-to-background ratio>3Ensures clear distinction between positive and negative results
Coefficient of variation<15%Indicates reproducibility
DMSO toleranceUp to 1-2%Essential for compound solubilization
Miniaturization384 or 1536-well formatReduces reagent consumption
  • Counter-screening Strategy:

    • Assays against human mitochondrial recycling factors to identify selective hits

    • Target-based versus phenotypic screening cascade

    • Parallel screening against multiple Rickettsia species frr proteins

    • Cytotoxicity assessment against mammalian cells

  • Compound Library Considerations:

    • Diversity-oriented libraries for initial broad screening

    • Fragment libraries for identifying binding scaffolds

    • Natural product collections for novel chemical space

    • Focused libraries based on known translation inhibitors

  • Hit Validation Pathway:

    • Dose-response confirmation

    • Orthogonal assay validation

    • Mode of action studies

    • Structure-activity relationship analysis

The potential of RRF as an antibacterial target has been recognized due to the significant differences between prokaryotic and eukaryotic ribosome recycling mechanisms . HTS campaigns targeting Rickettsia canadensis frr could yield novel antimicrobials effective against this and related intracellular pathogens, particularly important given the emergence of antibiotic-resistant bacteria .

How can structural differences between human mitochondrial and Rickettsia canadensis ribosome-recycling factors be exploited for selective inhibitor design?

Exploiting structural differences between human mitochondrial and Rickettsia canadensis ribosome-recycling factors represents a promising strategy for developing selective inhibitors:

  • Key Structural Distinctions:

    • Divergent amino acid composition at the ribosome binding interface

    • Differences in the hinge region connecting the two domains

    • Unique surface electrostatic potential distributions

    • Species-specific insertions or deletions in non-conserved loops

  • Targeting Species-Specific Pockets:

    • Identification of cavities present only in bacterial frr

    • Characterization of allosteric sites unique to bacterial proteins

    • Analysis of differential flexibility in key functional regions

    • Exploitation of co-factor binding differences

  • Rational Design Considerations:

    • Development of compounds that interact with bacterial-specific residues

    • Design of conformational locks that freeze bacterial frr in inactive states

    • Creation of molecules that disrupt bacterial-specific interaction networks

    • Structure-based optimization guided by selectivity indices

  • Computational Approaches:

    • Comparative molecular dynamics simulations of human and bacterial factors

    • Machine learning models trained on structural differences

    • Ensemble docking to multiple conformational states

    • Free energy perturbation calculations to predict binding selectivity

Similar exploitation of structural differences has proven successful for other translation-targeting antibiotics. As noted in research with E. coli RRF, "the mechanism involved in recycling of the protein-making machinery is different in eukaryotes versus prokaryotes, that is humans versus bacteria," making this an attractive target for new antibiotics . This approach has become increasingly important with "the emergence of antibiotic-resistant pathogens" .

While humans have an RRF analogue in mitochondria, experience with antibiotics like erythromycin and tetracycline demonstrates that selective targeting is feasible. These antibiotics "kill bacteria but are virtually harmless to humans, showing little side effect despite their influence on mitochondrial protein synthesis" . Through rational drug design, it is "even possible to design anti-RRF which would only influence bacterial RRF" .

What experimental models best simulate the natural infection environment for testing frr inhibitors against Rickettsia canadensis?

Developing experimental models that accurately simulate the natural infection environment is crucial for testing frr inhibitors against Rickettsia canadensis:

  • Cellular Models:

    • Primary Human Dermal Microvascular Endothelial Cells (HDMECs):

      • Closely mimic natural vascular infection sites

      • Allow assessment of cytopathic effects and cell survival

      • Enable monitoring of host immune responses

      • Permit evaluation of bacterial replication kinetics

    • Three-dimensional Tissue Models:

      • Organoid cultures representing target tissues

      • Microfluidic "organ-on-a-chip" systems with physiological flow

      • Co-culture systems with immune cells

      • Extracellular matrix components to recapitulate tissue architecture

  • Ex Vivo Systems:

    • Infected human skin explants

    • Precision-cut tissue slices

    • Isolated perfused organ models

    • Tick feeding/infection models

  • Animal Models:

    • Selection Criteria for Appropriate Models:

      • Susceptibility to Rickettsia canadensis infection

      • Recapitulation of human disease manifestations

      • Immunological similarity to human responses

      • Feasibility of experimental manipulation

    • Potential Animal Models:

      • Guinea pig models (used successfully for R. rickettsii studies)

      • Humanized mouse models with human immune components

      • Non-human primate models for advanced preclinical testing

      • Arthropod transmission models incorporating tick vectors

  • Evaluation Parameters:

ParameterMeasurement MethodSignificance
Bacterial burdenqPCR, immunofluorescenceDirect measure of inhibitor efficacy
Tissue pathologyHistopathological scoringAssessment of disease progression
Immune responseCytokine profiling, immune cell infiltrationEvaluation of host response modulation
Host cell survivalLDH release, apoptosis markersIndication of cytopathic effect inhibition
  • Experimental Design Considerations:

    • Timing of inhibitor administration (prophylactic vs. therapeutic)

    • Route of administration relevant to potential clinical application

    • Pharmacokinetic/pharmacodynamic (PK/PD) sampling to confirm target engagement

    • Inclusion of appropriate control groups including standard-of-care antibiotics

Research with R. rickettsii has demonstrated that human dermal microvascular endothelial cells provide a relevant model system for studying Rickettsia pathogenesis, allowing comparison between virulent and attenuated strains . Similar approaches could be adapted for testing frr inhibitors against R. canadensis.

How does frr function in Rickettsia canadensis compare to its role in tick-borne versus non-tick-borne Rickettsia species?

Comparing frr function between tick-borne Rickettsia canadensis and other Rickettsia species provides insights into evolutionary adaptations to different transmission routes and host environments:

  • Evolutionary Context:

    • Genome architecture differences between tick-borne and non-tick-borne Rickettsia

    • Presence and arrangement of mobile genetic elements across species

    • Selective pressures unique to different transmission cycles

    • Impact of host switching on translation machinery evolution

  • Functional Adaptations:

    • Temperature-dependent activity profiles reflecting vector vs. mammalian host environments

    • Stress response integration specific to transmission mode

    • Efficiency of recycling under varying host conditions

    • Potential for moonlighting functions beyond canonical recycling

  • Host-Pathogen Interface:

    • Interaction with vector and mammalian host factors

    • Impact on translation of virulence determinants during different infection phases

    • Contribution to persistence in tick vectors

    • Influence on replication kinetics in different host cell types

  • Comparative Analysis Framework:

Rickettsia GroupRepresentative SpeciesTransmissionHost RangeGenome Features
Spotted Fever GroupR. rickettsiiTick-borneBroad vertebrateLarger genomes, more MGEs
Typhus GroupR. prowazekiiLouse-borneHumansSmaller, more reductive genomes
Ancestral GroupR. belliiVarious arthropodsDiverseMore complete metabolic pathways
Transitional GroupR. felisFlea-borneMammalsMixture of SFG and TG features

Within this framework, R. canadensis (tick-borne) likely shows functional frr adaptations that reflect its transmission cycle and evolutionary history. The mobile genetic elements prevalent in Rickettsia genomes, particularly in species like REIS with larger genomes , may influence the evolution and function of translation machinery including frr.

Research with R. rickettsii has demonstrated that virulence factors like RARP2 and RapL can mitigate host immune responses , suggesting that the efficiency of translation machinery, including frr, could impact virulence by affecting the expression of such factors. Comparative studies across Rickettsia species transmitted by different vectors could reveal how frr has adapted to support pathogen survival in diverse host environments.

What is the potential impact of targeting frr on Rickettsia canadensis metabolism and persistence in host cells?

Targeting frr in Rickettsia canadensis would likely have profound and multifaceted effects on bacterial metabolism and persistence in host cells:

Studies with R. rickettsii have shown that virulence factors like RARP2 and RapL influence host immune responses and bacterial replication in human cells . RARP2 disrupts the trans-Golgi network to inhibit trafficking to the host plasma membrane, while RapL modulates host interferon responses . Inhibiting frr would likely impair the production of these and other virulence factors, potentially attenuating Rickettsia pathogenicity.

The table below compares the predicted outcomes of frr inhibition at different levels:

Inhibition LevelShort-term EffectsLong-term Consequences
Mild (<50%)Slowed growth, minimal impact on established infectionsSelection for resistant mutants, potential persistence
Moderate (50-80%)Significant growth inhibition, reduced virulence factor expressionBacteriostatic effect, immune clearance enhancement
Strong (>80%)Translation arrest, metabolic collapseBacterial clearance, potential host cell recovery

This multifaceted impact makes frr an attractive target for novel therapeutics against Rickettsia infections, potentially offering both direct antibacterial effects and enhancement of host immune clearance mechanisms.

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