exam 2 Flashcards
(336 cards)
polymerase chain reaction-PCR
amplification of viral genome/DNA
The steps of how PCR works
- denaturation
- annealing
- extension/elongation
Real Time/Quantitative PCR
- advanced form of PCR which allows monitoring and quantification of increasing accumulation of PCR products/nucleic acid load as reaction progresses
- useful to study virus load in patient
DNA sequencing
-process by which the sequence of bases in a DNA molecule is elucidated/can be obtained and read
Next Generation Sequencing
-significantly cheaper, quicker, needs significantly less DNA, has high throughput, and is more accurate and reliable than Sanger sequencing
Metagenomics
- study of the collective set of microbial populations in a sample by analyzing the sample’s entire nucleotide sequence content
- powerful method for random detection of existing and new pathogens
Phylogenetic analysis
-use of virus genome sequence data to study evolution of viruses and genetic relationships among viruses
microarray
- several thousands of known DNAs (probes) amplified by PCRs/RT-PCRs, are spotted onto glass or silicon chip
- target/sample DNA are fluorescently labeled and then hybridized/added to chip containing DNA probes
- positive reactions between probe-DNA and sample DNA (hybridization) generate a fluorescent signal from the spot where the probe DNA is spotted in the chip
Advantage of microarrays
-hundreds of pathogens can be screened for simultaneously using a single microarray chip
Treatment of Viral Diseases
- antiviral drugs
- immune system stimulation
- synthesize antibodies or administration of natural anti-serum (antibodies)
antiviral drugs
- interfere with the ability of a virus to infiltrate a target cell or target different stages of replication/synthesis of components required for replication of the virus
- used specifically for treating viral infections
immune system stimulation
-interferons- have antiviral effects and modulate functions of immune system
Acyclovir
- antiviral activity primarily restricted to herpesviruses
- administered as prodrug, inactive form
- requires virus enzymes in infected host cell to convert itself into active form, which then interferes with virus replication
What is acyclovir used to treat?
- herpesvirus infections in humans
- feline herpesvirus-1 induced corneal ulcers
- equine herpesvirus-1 induced encephalomyelitis
What is acyclovir a synthetic nucleoside analog of?
-deoxyguanosine
mechanism of action of acyclovir
- competitive inhibition of viral DNA polymerase, as acyclovir-triphosphate competes with dGTP for viral DNA polymerase
- herpes simplex’s DNA polymerase enzyme incorporates acyclovir monophosphate into the growing DNA strand as if it were 2-deoxyguanosine monophosphate (G base), further elongation of the chain is impossible and viral DNA chain synthesis stops
Why is acyclovir non-toxic to uninfected host cell?
- enzymes herpesvirus thymidine kinase and herpes virus DNA polymerase are viral enzyme, not found in uninfected host cells
- without these, acyclovir cannot be phosphorylated and incorporated into host DNA
Amantadine
-inhibits replication of most strains of influenza A by blocking uncoating of virus
mechanism of antiviral action of Amantadine
- M2 channel is target
- compounds clog channel and prevent it from pumping protons into virion
- in presence of amantadine, viral RNAs remain bound to M1 and cannot enter nucleus, virus replication inhibited
Neuraminidase inhibitors
- inhibitors of neuraminidase enzyme synthesized by influenza A and B
- Oseltamivir (tamiflu)
Neuraminidase inhibitors: mechanism of action
- blocking of neuraminidase with with NA inhibitors is effective way to treat influenza
- prevents release of virus and spread of infection, as HA of virus is still bound/attached to sialic acid containing receptors on surface of already infected host cell
- inhibition of neuraminidase, therefore slows virus spread, giving the immune system opportunity to catch up and mediate virus clearance
targets for anti-retroviral therapy
- inhibit fusion
- inhibit reverse transcriptase
- inhibit protease
- inhibit integrase
nucleoside analog reverse transcriptase inhibitors (NRTIs)
- Zidovudine (ZDV) or AZT (azidothymadine)
- ddI (didanosine)
ZDV/AZT
- nucleoside analog reverse transcriptase inhibitors (NRTIs)
- nucleoside analog of thymine
- competitive inhibition of reverse transcriptase activity: AZT- triphosphate competes with thymine deoxyribonucleotide triphosphate for reverse transcriptase
- insertion of AZT- monophosphate into cDNA blocks the growth of cDNA being transcribed from viral RNA by reverse transcriptase