Virology Flashcards
True or False: Positive RNA can be translated directed to protein.
True - generally translated to negative strands and then made into many positive strand
What is the best way to view viruses?
Electron microscope - 20nM
-300nM
True or false: Viruses do not need an extracellular phase to be considered a virus.
False - particles must pass from cell to cell, throughout body, or between individuals
What are 5 characteristics for classifying viruses
- Particle type - icosahedral, filamentous, enveloped, naked
- Tissue tropism
- Disease etiology
- Serology - cross reaction
- Genome type
Capsid
Protein shell of a virus - can be either naked or enveloped
Plaque Assey
Tissue culture for quantitating infectious virus - apply serial dilutions of virus and drug or neutralizing antibody
Focus Assay
Viruses promoting cell growth rather than death
Virus replication is characterized by an initial _______ and then rapid growth and _____.
- Gully
2. Burst
What are the properties of Picornavirus?
Icosahedral \+ssRNA no lipid envelope no tegument Mostly pH stable
Enterovirus, rhinovirus, hepatovirus, parechovirus and kobuvirus are all types of what virus?
Picornavirus - most common agent of common cold
Enterovirus has what type of transmission?
Fecal/oral - via water supply - capsid is resistant to mild sewage treatment
What is characteristic of paralytic poliomyelitis
Asymmetric flaccid paralysis
What does polio virus isolated in the oropharynx look like?
Asympotomatic - viremia is what looks like slight flu
Where can picornavirus (polio) be isolated from?
Throat, stool, or CSF
What is the attributed as the cause of the polio epidemic?
Indoor plumbing: children no longer encounter the virus at a young age when they have maternal antibodies - worse disease
How does picornavirus/polio virus ensure its ssRNA gets translated quickly?
- Its + sense
2. It has a 5’ end that grabs ribosomes
How many proteins does picorna/polio virus encode?
One - it uses proteases to cleave different products
What are three targets for therapy for picornavirus
- Protease inhibitors
- RNA-dependent RNA Polymerase
- Block entry
Where does picornavirus replicate?
Cytoplasm
What is a major challenge for -RNA viruses?
Encode enzymes to translate it to +sense
What are characteristics of adenovirus?
- dsDNA
- Icosahedral capsid w/ penton spikes
- fecal/oral transmission
- Frequent unapparent
respiratory infection - Many serotypes
What is something that picornavirus and adenovirus have in common?
They both use the coxsackie/adenovirus receptor to mediate entry
Where does adenovirus replicate?
Nucleus
What are characteristics of an acute infection?
- Rapid onset
- Active virus + immune response → pathogen cleared, memory
- Immunopathology from overactive immune response
What are characteristics of an acute/chronic infection?
- Acute onset + immune response → Virus not cleared
- Initial response is subdued to prevent immunopathology
- Immune response of host is set to higher activation state overall - higher cytokines
Latent
A viral life cycle characterized by minimal–if any–expression of a subset of viral genes and absence or lytic replication and infectious virion production
What are two advantages of latent virus infection?
- Stealth
2. Cell maintains viral genome - difficult to target
What are two disadvantages of latency?
- Spread is limited
2. Death of latently infected cell is dead end for virus
How do viruses overcome the challenges of latency?
- Reactivation
2. Establish latency in long-lived cells - memory T and B, hematopoietic stem cells
What is a prototype virus for chronic persistant infection?
Hepatitis C
T cell exhaustion
Persistant infection leads to downregulation of T cells → Loss of antiviral functions and death of T cells
Latent infections are quiescent, but result in a higher level of __________. Is this good or bad?
Circulating cytokines - this can be good since you clear infection quicker, but can also serve as a promotor for those predisposed to autoimmune infections
How is disease generated with latent infection?
Reactivation - the switch to the lytic life cycle
Tissue damage from persistant infections is associated with what?
- Mostly from inflammation and excessive immune response
- Very low levels from damage associated with replication
- ROS and cytokines can cause DNA damage → cancer, diabetes
How do you target chronic persistant infection?
- Anti-viral therapy
2. Immunosuppression - careful balance
What functions do IFNs serve in the immune response?
- Activate macrophages
- Activate Th1
- Activate B cells → IgG
- Activate memory and killer T cells
What limits interferons as therapeutics?
They induce inflammation, cause the symptoms associated with being sick
What is the “Type 1 interferon response”
Virus sensed by PRRs/TLRs triggers synthesis and secretion of IFN α/β which induce the “antiviral state” in nearby cells
How do nearby cells sense/implement the antiviral state?
IFN α/β bind receptors which lead to translation of PKR and OAS via Jak/Stat
PKR
Protein Kinase R - Shutdowns mRNA translation
- Binds dsRNA (becomes autophos’d/active)
- Phos eIF-2 - normally initiates peptide synthesis
OAS
2’-5’ Oligoadenylate Synthetase
- Binds/activated by dsRNA
- Catalyzes synthesis of oligoadenylate from ATP
- AAA then activates RNAse L (endoribonuclease) - dedgrades mRNA
What are characteristics of the antiviral state?
Overall a decrease in protein synthesis, mRNA degradation, and inc. in NK cell
- Increased MHC I expression
- Inc. PKR expression
- Inc. 2’-5’ OAS
What are the pro-inflammatory cytokines?
TNFα: Pyrogen, induces cell death - produced by activated Mφ, CD4, and NK cells
IL-1β: Pyrogen, produced by activated Mφ
IL-6
When a cell first senses a virus, what 2 classes of molecules are upregulated?
- Type 1 IFNs
2. NK activating ligands
What are 3 components of the innate immune response?
- Cytokines
- NK Response
- Complement
What are 3 components of the adaptive immune response?
- Cytokines: IFN-γ + IL-12 → Th1 and IL-2 → T cell proliferation
- T cell via Class 1 and CD8
- B cell response (antibodies)
Apoptotic Response
- From within - selfless
2. From outside - Fas or by TNFα on CD8 or NK cells
What genes regulate apoptosis?
- p53
2. caspase 9 and 3 mediate cascade → activated by leaky mito losing cytochrome c
What are 5 mechanisms to circumvent the Type 1 IFN Response/Induction of the Antiviral State?
- Encode proteins to prevent IFN binding
- Direct cellular phosphatase to dephos eIF-2α
- Decoy mRNA to sequester PKR and prevent activation
- Sequester dsRNA to prevent PKR activation
- eIF-2α decoys to bind activated PKR
What are 3 mechanism to circumvent innate immune defenses?
- Sequester IL-1β w/ viral binding protein
- Encode homologs of complement control proteins → prevent MAC formation
- Encapsidate viral/host complement control proteins in their membranes to evade lysis
What are 6 mechanisms to avoid Class 1 MHC Presentation?
- Degrade TAP transporter
- Block TAP transporter - no peptide in ER
- Degrade MHC1 molecules
- Divert MHC 1 to lysosomes
- Retain MHC 1 in ER/Golgi
- Downreg transcription of MHC components
What are 3 mechanisms to evade NK cell killing?
- Encode decoy MHC 1 like molecules - more inhibition
- Prevent NK cell receptor ligands from getting to cell surface
- Remove HLA-A and HLA-B from cell surface- only HLA C - not as effective
Viruses can also induce the downregulation of ______ and ____.
- Adhesion molecule ICAM-1
2. Costim B7 (CD80/CD86)
Viruses also encode which inhibitors of apoptosis?
- p53 inhbitors
- Bcl-2 homologs
- Inhibitors of caspases
- Soluble TNF receptors - prevent TNF triggered apop
What other characteristics can make viruses difficult to kill?
- Latency
- Epitope mutation
- Infection of “privileged sites”
- Intracellular sequestration
- Infection via immune receptors
How does Merkel cell polyoma virus cause cancer?
A common deletion renders virus unable to complete replication cycle; persistant infection
More common in immunosuppressed
How does papillomavirus cause cancer?
E5: stimulates constitutive GFR signaling
E6 & E7: neutralize “brakes” p53 and Rb - target them for degradation
Uncouples cell division from regulatory control
What are the characteristics of papillomavirus?
dsDNA circular genome
1/3 infect GI, sexual transm.
Infects epithelium - causes cells in sratum spinosum to replicate
Rb protein
Blocks cells from going to G1 → S
E6 (HPV)
Blocks p53 and activates telomerase
Development of carcinoma is associated with ___________ of the DNA into the host chromosome. ___ and ___ are always retained in cancer cells.
- Integration
- E6
- E7
What are some of the problems with the HPV vaccine?
- Need good mucosal immunity
- Must recognize multiple strains
- Can’t include oncogenes
- Political
Hybrid capture assay (HPV)
- Isolate DNA
- Introduce target RNA strands
- Use antibodies to amplify and ID
Gardasil
Tetravalent vaccine with recombinant L1 VPLs
What etiologies can be caused by retroviruses?
- No ill effects
- Tumors - capture host gene
- Wasting disease/neurological disorders
- Immune deficiencies
What is the general structure and composition of retroviruses?
- Enveloped (env) embedded in membrane, matrix under lipid bilayer
- Capsid (groups specific antigens - gag genes)
- 2 copies of +ssRNA genome - only “diploid” virus
Gag gene includes which proteins?
- Matrix MA
- Capsid CA
- Nucleocapsid NC
- Protease PR
What does the Pol gene encode?
Reverse transcriptase and integrase (IN)
What does the Env gene encode?
- Surface SU (gp120)
2. Transmembrane TM (gp41)