Path Exam 2 Flashcards
personalized medicine
selection of treatment best suited for a particular individual and not an average representation of a population
Analysis of age-standardized death rates shows shows significant success in treatment of ___
heart disease
stroke
Death rates for ____ increase despite increased health care spending
COPD
diabetes
how are most existing drugs approved?
on basis of performance in a population
what is warfarin used for?
long-term treatment and prevention of thromboembolic events
what are the 2 genes involved in warfarin metabolism?
VKORC1
CYP2C9
Herceptin
Monoclonal antibody that targets breast cancers overexpressing HER2/neu gene
how do personalized cancer vaccines work?
- Cell therapy product is created using a technique that fuses the patient’s own tumor cells with immune-stimulating dendritic cells
- Fusion product is then injected back into the patient causing a specific immune response against the cancer
OncoVax results
33% increase in overall survival and a 40% reduction in deaths in colon cancer patients
MyVax
investigational treatment that combines a protein derived from the patient’s own tumor with an immunologic carrier protein and is administered with an immunologic adjuvant
DCVax
personalized therapeutic cancer vaccine manufactured from the patient’s own DCs that have been modified to teach the immune system to recognize and kill cancer cells bearing the biomarker of patient’s tumor
autologous cell vaccine
- cancer cells are treated with a hapten which binds to molecules on the surface of cells and helps trigger immune responses
- combined with an adjuvant to enhance effectiveness
- injected into pt so immune system can better locate and combat cancer cells
BIOVAXID
cancer vaccine recognizes and eliminates cancerous lymphoma cells, while sparing normal B cells
how does BIOVAXID work?
specific cancer antigen-bearing tumor cells harvested from a patient’s lymph node are fused to antibody-producing mouse cells and the produced large quantities of the protein antigens are then given back to patients with an immune system booster
ChemoFx assay
ex vivo assay designed to predict the sensitivity or resistance of a solid tumor to a variety of chemotherapeutic agents
main cancer biomarkers
estrogen and progesterone R
HER-2
what is the reason for identifying HER-2 cancers?
Identifying breast cancer patients with metastatic disease who may benefit from Herceptin
companion diagnostics
Use genetic, proteomic, gene expression or other molecular markers to predict whether a drug will work in someone or not, what dose is optimal and whether there is a risk of adverse effects
Verigene warfarin metabolism nucleic acid test
FDA approved test that detects variants of CYP2C9 and VKORC1 genes responsible for sensitivity to warfarin
HLA-B57
Marker for the potentially fatal hypersensitivity reactions in some patients taking the HIV-1 reverse inhibitor, abacavir
HLA-B1502
Those with this gene have a higher chance of developing adverse drug reactions against carbamazepine
Thiopurine methyltransferase
NZ involved metab of azathioprine and 6-mercaptopurin
Patients with low TPMP are at an ___ risk of myelotoxicity if taking azathioprine or 6-mercaptopurin
increased
Azathioprine
used in renal homotransplantations and for the management of active rheumatoid arthritis
6-Mercaptopurin
therapy of acute lymphatic (lymphocytic, lymphoblastic) leukemia
Erbitux and panitumumab
Drugs that require testing of patients with colorectal cancer for EGFR receptor before treatment
Imatinib
Targeted therapy for leukemia and a test for the bcr/abl translocation determines if a patient benefits from this drug
Ivacaftor is effective in treating patients with the ___ mutation in ___
G551D
cystic fibrosis
genetic test for breast cancer
BRCA
genetic test of colon cancer
MLH1
MSH2
microarray
Consists of an arrayed series of microscopic spots of probes on a solid surface which bind to the components of the analyzed sample with high specificity
what are the probes in microarrays?
oligonucleotides or fragments of cDNA attached to solid surfaces or beads
how are microarrays created?
in situ synthesis
depostion of presynthesized oligonucleotides
Affymetrix arrays
oligonucleotide probes are synthesized directly in situ using photolithography techniques adapted from the microelectronics industry
how are microarrays made with ink jet printing?
- Nucleotide monomers are printed onto the chip and coupled using phosphoramidite chemistry
- Hybridization is detected by using a confocal laser scanning microscope to image the intensity of fluorescently labeled samples
Compared to cDNA arrays, the oligonucleotide arrays offer ________
greater specificity and can distinguish single nucleotide polymorphisms (SNPs) and splice variants
4 categories of research with microarrays in humans
Normal tissue taxonomy
Disease diagnosis and classification
Disease prognostication
Dissection of biological mechanisms
mammaprint
70 gene signature that identifies which early-stage breast cancer patients are at risk of distant recurrence following surgery, independent of estrogen receptor status and any prior treatment
MINDACT
- microarray for node-negative disease may avoid chemotherapy trial
- aims to determine whether this expression signature can be used for making clinical decisions
Oncotype assay
- RT-PCR assay based on a 21-gene signature derived from 250 candidate genes selected from the published microarray literature
- used to see if a pt will benefit from chemo
Genome-wide studies of gene expression microarrays
- Differentiation of biological states by differences in gene expression
- What pathways are affected by different biological states
Locus copy # microarray
Disease specific chromosomal loss and amplification
Chromosome instability in cancer
1st generation DNA sequencing
“Sequencing by synthesis” → uses DNA polymerase
Adds bases to the 3’ end of a primer bound to a DNA template
Incorporates dNTP bases complementary to the template
limitations of 1st generation DNA sequencing
only one sequence per lane can be sequenced and a complex and labor-intensive separation of template sequences is needed
how did fluorescent ddNTPs change DNA sequencing?
Allows analysis of all 4 reactions in 1 lane
Fluorescent fragments detected by laser excitation
Possibility for automation
how did fluorescent capillary electrophoresis change DNA sequencing?
Read length is significantly increased Adjacent lane spillover is eliminated and lane tracking problems are gone Higher sensitivity Less reagents and template Lower cost, less work Highly automated and more consistent
next generation DNA sequencing
“Massively parallel”
Cost-effective and rapid
Production of large numbers of low-cost reads makes the NGS platforms useful for many applications, including clinical applications
Chip-Seq
sequencing of DNA associated with active chromatin
_% of transcribed RNA are genes
1
commensal
normal flora or non-sterile body sites
symbiotic colonization
environmental species
reservoirs are non human
obligate pathogens
capable of causing disease in healthy and immunocompromised hosts
opportunistic pathogens
typically rely on some kind of immune impairment, local or systemic, in order to cause infection
iatrogenic suppression
immunosuppression/therapuetic regimens that increase risk for infection
ivermectin treats?
river blindness caused by the filarial worm, transmitted by flies
lymphatic filariasis caused by worms, transmitted by mosquitoes
artemisinin
antimalarial drug
what kind of pathogen is C diff?
anaerobic bacterium
possible treatments for C diff
fecal microbiota transplants
Monoclonal antibodies block toxin receptors
listeria
Can be found in food processing plants
Survives and proliferates at refrigeration temperatures
endemic
steady state of disease in a population
examples of endemic diseases
malaria
syphilis
TB
outbreak
case numbers exceed usual expectation for a defined community, region, or season
epidemic
disease spreads rapidly
pandemic
global epidemic
examples of epidemics
flu
SARS
ebola
examples of pandemics
HIV/AIDS
flu
bioterrorism
use of infectious agents as weapons
malaria
Endemic mosquito borne protozoan disease
what can lead to new strains of pathogens?
genetic mutations
adaptation
zoonotic transmission
selective pressure that drive opportunistic infections
Immunosuppression
Antimicrobial resistance
plague pathogen
Y pestis
CDC category A bioterrorism
readily disseminated
pandemic potential
requires public preparedness
CDC category B bioterrorism
moderately easy dissemination
morbidity
requires surveillance and diagnostics
CDC category C bioterrorism
emerging or engineered
high morbidity and mortality
what allows flu to have persistent genetic mutation
segmented RNA genome
antigenic drift
minor mutations in outer viral proteins of the flu
antigenic shift
major genetic recombinations that can create a risk for epidemics and pandemics
flu reservoirs
birds
pigs
what is the reason that we have to change the flu shot every year?
antigenic drift
SARS
respiratory virus
Enveloped single-stranded RNA unsegmented genome
caused a worldwide outbreak
MERS
Enveloped single-stranded RNA unsegmented genome
causes upper resp illness
ongoing
why was the E Coli outbreak in 2011 more virulent?
novel genetic exchange between a Shiga toxin producing strain and a different strain that manifests strong adherence to intestinal cell epithelium
antimicrobials
Drugs that act against bacteria, viruses, fungi or parasites
2 major adverse consequences of antimicrobials
Disruption of normal biologic function
Selection for antimicrobial resistance
what is artemisinin resistance due to?
Poor treatment practices
Inadequate patient adherence to regimens
Widespread availability of substandard forms of the drug
Carbapenems
broad spectrum beta lactam drugs in the same family as penicillin
prion size
<1um
what do prions cause?
intracellular propagation of abnormal proteins
virus size
<1um
what are viruses?
obligate intracellular pathogens
the essential nucleic acid core of a virus is surrounded by a ___
capsid
herpesviridae
Enveloped viruses with a large complex genome that persist in host cells by establishing latency
how is herpes DNA maintained in the host cell?
incorporation into host DNA or as a plasmid-like independent episome, separate from host cell chromosomes by able to interact with DNA
how does herpes cause disease after infecting the host cell?
activation of viral replication and release of virus from infected cells causes recurrent symptomatic disease
alpha herpes viruses
variable range of tissue tropism including mucocutaneous and neuronal tissue
examples of alpha herpes viruses
herpes simplex
varicella zoster
beta herpes viruses
longer reproductive cycle and a different if not more restricted tropism
example of beta herpes viruses
cytomegalovirus
gamma herpes viruses
predominantly lymphotropic, specific to T or B lymphocytes
example of gamma herpes viruses
Epstein-Barr
how is HSV transmitted?
close contact with lesions
where does HSV establish latency?
neuronal ganglia proximal to the site of initial infection
Typical sites of HSV primary and recurrent infection
brain
conjunctiva
orofacial and genital mucocutaneous sites
where do shingles outbreak?
in a dermatomal pattern in the areas of the skin innervate by infected ganglia
what are the reservoirs for HSV and VSV?
only humans
flu transmission
respiratory droplets, contact with contaminated surfaces/hands
cytopathic effects
changes that can be seen by light microscopy even if the actual virus can’t be seen
what kind of virus is hepatitis B?
DNA
what kind of virus is hepatitis C and A?
RNA
tropism of hepatitis
liver
what kind of cell are bacteria?
prokaryotes
bacteria cell wall functions
cell integrity
growth
metabolism
gram positive
thick peptidoglycan layer
gram negative
thin peptidoglycan layer and lipid bilayer
Microbiomes
site-defined complex ecosystems of microbes, genes, and products that contribute to our healthy function
Toxigenic C Difficile
Anaerobic spore-forming bacterium with toxin-producing and non-toxigenic strains
what kind of cell are fungi?
eukaryotes with a cell wall
2 basic kinds of fungi
yeast
mould
difference btwn yeast and mould
yeasts are single celled
moulds are multicellular
hyphae
collections of elongated cells of moulds
how do most fungi reproduce?
create environmentally hardy spores that easily disperse
what kind of cell are parasites?
Eukaryotes
2 basic kinds of parasites
protozoa
helminths
what kind of cell are protozoa
single celled eukaryote
helminths
Multicellular parasites with complex life cycles
roundworms
nematodes
nonsegmented
collagenous tegument
flatworms
cestodes
gutless
head and body segments
flukes
trematodes
primitive, leaf like worms
Ectoparasites
Live on skin or elsewhere outside of the host
are prions prokaryotes or eukaryotes?
neither- proteins
are viruses prokaryotes or eukaryotes?
neither
how do candida yeast cause infection?
part of normal gut flora
changes in flora allow yeast to cause infections
what is the first barrier of defense against pathogens?
skin
how is hepatitis A acquired?
ingestion of something contaminated, but it is tropic to the liver and causes inflammation of the liver
how is hepatitis B and C acquired?
transmitted by blood-borne exposures but also are hepatotropic
how do microbes cause disease?
direct cell damage
transformation
cell death
tropism
preferential cell or tissue infection
HIV tropism
CD4 T cells
where does Epstein Barr establish latency?
memory B cell compartment
where does BKV establish latency?
renal epithelium
where does CMV establish latency?
salivary glands
which herpes viruses insert episomal viral genome into the host nucleus?
HSV
VZV
which pathogen incorporates proviral DNA into the host genome?
HIV
which viruses control cell apoptosis?
HCV
CMV
EBV
HIV
how do microbes avoid clearance by the immune system?
immunosuppressive cytokine
alteration of MHC expression
which pathogen stimulates production of immunosuppressive cytokines like interleukin 10?
hepatitis C
which pathogens alter host-cell antigen expression to avoid immune recognition?
HIV
HSV
CMV
S pyogenes induced immune complexes cause ___
renal injury
TB causes
granulomatous inflammation and necrosis
endotoxins
components of the microbe
exotoxins
substances released by the microbe
pathogens that use binary toxins
diphtheria
anthrax
what are the symptoms of anthrax a result of?
2 Bacillus anthracis exotoxins:
edema factor
lethal factor
how do binary toxins works?
the B component binds the host cell R
A component catalyzes cell signaling mechanisms to produce exotoxin
4 basic ways of evading the host immune system
staying inaccessible
antigenic variation
evasion of innate defenses
evasion of adaptive defenses
how do pathogens stay inaccessible to host immunity?
become enclosed in a protective structure
camouflage
establish latency
how do pathogens use antigenic variation to evade the host immune system?
change or shed surface antigens
replication errors
how do pathogens evade innate defenses?
bind antibodies
degrade antibodies
avoid phagocytosis
block complement
how do pathogens evade adaptive defenses?
prevent MHC expression
express fake MHC
degrade MHCII
infect lymphocytes
suppurative inflammation
pathogen encourages an influx of neutrophils to the site of infection → pus or abscess
Granulomatous inflammation
organism survives inside macrophages, walled off by surrounding fibrous tissue and other inflammatory cells including multicellular macrophages
examples of cytopathic agents
herpes
hepatitis B
examples of cytoproliferative agents
HPV
molluscum contagiosum
cytopathic
kill cells as they escape to infect another cell
cytoproliferative
induce autonomous growth and produce tumors
cytoproliferative pathogens that are potential inducers of neoplasia
EBV
HPV
necrotizing pathogens
cause rapid and severe tissue destruction via potent toxins and enzymes
examples of pathogens that cause chronic inflammation and scarring
hepatitis B and C can cause cirrhosis of the liver
Increased cell turnover associated with chronic inflammation and scarring can lead to ____
cellular mutations and increased risk for tumor and malignancy
autosomal chromosomal disorders
gain or loss of all or part an autosome
general phenotype of autosomal chromosomal disorders
low birth weight short stature failure to thrive severe mental retardation multiple organ systems affected
single gene disorders
Submicroscopic changes to 1 gene, ranging from a single base change to deletion of the whole gene
Pleiotropism
a single gene affects a number of phenotypic traits in the same organism
Variable expressivity
range of signs and symptoms that can occur in different people with the same genetic condition
Incomplete penetrance
If some people with the mutation do not develop features of the disorder, the condition is said to have reduced (or incomplete) penetrance
advanced paternal age is associated with an increased risk of ____
autosomal dominant disorders
what kind of transmission is in the autosomal dominant family tree?
vertical
_% of offspring are affected in autosomal dominant disorders
50%
are more males or females affected in autosomal dominant disorders?
= #s
familial hypercholesterolemia
elevated levels of cholesterol that induce premature atherosclerosis and increased risk of early myocardial infarction due to a mutant LDL R gene
LDL receptor mutation class 1
non LDL R protein made
null allele
uncommon
LDL receptor mutation class 2
accumulation in the ER
fairly common
LDL receptor mutation class 3
little or no binding of receptor to LDL
LDL receptor mutation class 4
poor internalization of LDL+ R
LDL receptor mutation class 5
tight LDL R binding
no recycling
where do FH heterozygotes get xanthomas?
tendons
where do FH homozygotes get xanthomas?
cutaneous
diagnosis of familial hypercholesterolemia
Serum LDL > 200 Elevated triglycerides Plasma cholesterol >300 mg/cc in adults Xanthomas seen by physical exam chest pain obesity family history
how do statins works?
suppress cholesterol synthesis and allow greater synthesis of LDL R
what kind of disease is Tay Sachs?
autosomal recessive
Tay Sachs pathology
No detectable hexosaminidase A
No degradation of GM2 ganglioside in the lysosome
Accumulation of GM2 ganglioside in brain cells
Neurologic changes and eventual death
what causes Tay Sachs?
Frameshift mutation in hexosaminidase A gene (15q)
what is tested to find out if someone is a Tay Sachs carrier?
levels of Hex A activity
<50% activity indicates carrier
Sandhoff’s
mutant in hexosaminidase B gene (chromosome 5)
Clinically similar to Tay Sachs
Variant AB
mutation in HexA/Hax B activator protein (chromosome 5)
Clinically similar to Tay Sachs
what kind of disease is cystic fibrosis?
autosomal recessive
what causes CF?
Mutant CFTR gene → Cl channel deficiency
diagnosis of CF
symptoms
sibling with CF
sweat test
symptoms of CF
Meconium ileus in infant Recurrent respiratory infections Greasy, foul smelling stools due to pancreatic insufficiency and lack of digestive enzymes Malnutrition, stunted growth Male infertility
how do CF sweat tests works?
Sweat absorbed onto filter paper is analyzed for Cl
[Cl] >60mEq/L → positive
CF treatments
Antibiotics
Pancreatic enzyme replacement therapy
Lung inhalation therapies
Lung transplantation
what is the current genetic test for CF?
CF86
tests for the 86 most common mutations
Founder effects
mutant allele appeared in a geographically isolated population and was enriched in subsequent generations
what kind of transmission are X linked dominant disorders?
vertical
are there more females or males affected with x linked dominant disorders?
females
what kind of disease is hypophosphatemic rickets
X linked dominant
what causes hypophosphatemic rickets?
Mutation in the PHEX gene on chromosome Xp
hypophosphatemic rickets symptoms
defective vitamin D metab causes deranged bone growth, skeletal abnormalities and dental problems
what characterizes hypophosphatemic rickets?
Failure to thrive
Short stature
Rickets
age of onset of hypophosphatemic rickets?
early infancy
15 months