Exam 2 Flashcards
Epigenetics (def)
DNA expression w/o change in DNA structure caused by external/environmental factors
-can be heritable
-allows for differing cell types (w/ same DNA)
Diethylstilbestrol
Potent estrogen drug
Given for miscarriage prevention
= modified child epigenome & reproductive abnormalities
DNA methylation
gene silencing
methyl groups added to histone tails
DNA methylation process
CpG methylation (cytosine-phosphate-guanine)
Methyltransferase adds methyl group = 5-methylcytosine
RNA polymerase cannot bind = gene silencing
HDACs recruited –> chromatin condenses! (heterchromatin)
Histone modifications
Methylation
Acetylation
Phosphorylation
Histone tail structure
amino acids | positively charged
Modified histones –> neutralized charge
Histone Methylation
Increase or decrease transcription (depend on number and what is methylated- multiple histone tails can be methylated)
-Arginine (R) & Lysine (K)
Methylation Process
histone methyltransferase adds methyl groups
= increase or decrease gene transcription
Acetylation
promotes transcription
neutralizes DNA charge
loosens DNA (euchromatin)
Acetylation Process
HATs (histone acetyltransferases) remove methyl and adds acetyl groups = change proteins produced
Phosphorylation
decrease transcription (condense DNA=heterchromatin)
Can be phosphorylated- Serine | Threonine | Tyrosine
Phosphorylation Process
phosphate groups added by kinases/phosphatases
Aurora B: condenses chromatin (heterochromatin)
Protein kinase: de-condense (euchromatin)
What epigenetics is cancer associated with?
unmethylated cytosines | acetylated histones
High oncogene expression
deacetylated histones | methylated cytosines
Low tumor suppressor genes
Oncogene (def)
overactive/expressed mutated gene form
cancer accelerator
Proto-oncogenes
normal gene involved with cell growth
Oncogene example
Ras point mutation
Tumor Suppressor Genes (def)
slow cell growth | assist in DNA repair
cancer decelerator
Tumor Suppressor Gene Example (which leads to cancer)
P53 protein stops cell cycle
cells replicate w/ mutated DNA = cancer
Caused by heat, radiation, chemicals
Tumor Cell Lines (def)
Tumor cells will grow in petri dish, unlike normal cell which die
HDAC inhibitors
cancer treatment
drug which kills cancer cell lines
effect in Mast Cell Tumor
RNAi (def)
RNA interference
inhibits specific mRNA which decreases protein expression
Types: siRNA | shRNA | miRNA
siRNA (def)
small interference RNA
silences protein
siRNA structure
double-stranded | 20-25 nucleotides | exogenous | degrades quickly
siRNA process
AGO protein complex peels passenger (sense) strand –> becomes RISC
RISC breaks up mRNA = silencing
in cytosol
What RNAi silences FVR (feline herpesvirus 1) & how?
siRNA
targets viral protein D required for FVR replication = silencing
shRNA (def)
short hairpin RNA
central section of RNA “folds over”
shRNA structure
1 stranded and folds to 2 stranded RNA
exogenous | long-lasting
shRNA process
Dicer chops “hairpin” part = silence mRNA
constantly reproduced so long-lasting
in cytosol
Ago
Argonaut
Protein complex used in silencing process of siRNA to peel off passenger (sense) strand
RISC
RNA-induced silencing complex
breaks up mRNA for silencing in siRNA
Explain shRNA in cattle / texel sheep
Myostatin inhibits muscle growth in cattle
Mutation of myostatin (shRNA) = big muscles!
miRNA (def)
micro-RNA
targets several mRNAs for silencing
miRNA structure
target several mRNAs
endogenous | long RNA precursors (pri-miRNA)
miRNA process
made in nucleus –> transported to cytosol
pri-miRNA –> pre-miRNA by Drosha
Dicer chops off hairpin
mRNA degraded either by cleaving or suppressing during translation = silencing
Common diseases with miRNA
cancer
neurodegenerative
cardiovascular
viral infections
Explain miRNA’s role in Canine Mammary Cancer
miRNA-21 decreases tumor suppressors
miRNA-15a decreases oncogenes
=cancer
Pros/Cons of using RNAi for therapeutic purposes
Pros: more specificity than chemical drugs
Cons: price | delivery
Antagomirs
inhibit miRNAs that are causing issues (ie cancer)
3 Types of Antagomirs
Inhibitors
Sponges
Masks
Inhibitor (Antagomir type)
floods cells with passenger strands to take up the guide strands so miRNA cannot bind
Sponges (Antagomir type)
synthetic RNA used as “decoy” to soak up complexes (miRNA cannot cause effect)
Masks (Antagomir type)
Bind to target sequence on mRNA but w/o Arg
Act like “receptor-blocker” so miRNA cannot bind
Gene Therapy (def)
introduces new genes to restore or add gene expression
What disease is a good candidate for gene therapy and why?
Neuronal Ceroid Lipofuscinosis
only single nucleotide deletion
Forms/Modes of Gene Therapy
Direct
Cell-Based
Direct (form of gene therapy)
Inject DNA that encodes for a protein
Cell-Based aka indirect (form of gene therapy)
inject DNA into petri dish cells, then patient
use cells from same patient to prevent immune response
Types of Gene Therapy
Somatic gene therapy
Germline gene therapy
Somatic Gene Therapy
DNA transferred to patient only
no effect on progeny
Germline Gene Therapy
DNA transferred to eggs/sperm
passed to progeny (permanent)
Gene Therapy Process
Cut & open plasmid
insert DNA and make protein
3 considerations for effectiveness of gene therapy
Packing/delivery to cell
Sufficient protein expression
Tissue specificity
Delivery Methods for Gene Therapy
Direct injection
Viruses
Nanoparticles
Viruses (for gene delivery) types
Adenovirus
Adeno-associated virus
Lentivirus
Why are viruses used for gene delivery in gene therapy?
can be produced for a lifetime if integrated into host DNA (via reverse transcriptase)
Pros/Cons Adenovirus in gene therapy delivery
Pros: good at getting into cell
Cons: short efficacy | immune response | no cell specificity
Pros/Cons Adeno-associated viruses in gene therapy delivery
Pros: long-lasting | cell specificity
Cons: small | limited gene delivery | possible mutation
Pros/Cons Lentiviruses for gene therapy delivery
Pros: last lifetime | cell-specificity | low immune response
Cons: could interrupt functional gene | from HIV
Nanoparticles (gene delivery type)
synthetic particles (lipids, polymers, metals) that encase DNA for delivery
Pros/Cons of Nanoparticles for gene delivery
Pros: easy to make | no risk of infection | low immune response | no size limit
Cons: not efficient in transport | no cell specificity
2 ways to achieve tissue specificity
tissue-specific promoter
directed delivery to target cells
peptides engineered on surface only
recognized by certain cell types
Totipotent stem cell
can make any cell
Pluripotent stem cell
can make any cell except zygotes
Multipotent stem cell
can make several cell types within lineage (ex: multiple WBC types)
Unipotent stem cell
can only make one cell type
Embryonic stem cells
pluripotent (generate many cell types)
formed from “inner mass”
embryo gets destroyed
can lead to uncontrolled tumor/growth
Adult stem cells
multipotent or unipotent
derived from patient (no immune response)
less chance for tumor growth
iPCS
induced pluripotent cells
normal cell made into pluripotent stem cells
no immune rejection
over-expresses oncogenes (possible cancer)
Allogeneic stem cells
from different individual but same species
Syngeneic stem cells
from different identical individual (twin)
Autologous stem cells
from same individual
Genetic Engineering (def)
exogenous DNA or mod of genome that transmits to progeny
Types of Genetic Engineering
Transgenic
Knockout
Knock-in
Transgenic (genetic engineering)
foreign DNA added to genome
Transgenic gene process
-Make transgene (generic or cell specific promoter)
-Inject into egg (male pronucleus of fertilized ovum)
-Insert transgene into genome (random)
Transgenic pros/cons
Pros: easy | quick | fine-tuning
Cons: random insertion so possible mutation | overexpression
Knock-out (genetic engineering)
suppress/delete endogenous gene
gene cannot express
Knock-out Process
-make targeting construct
-introduce embryonic stem cells
-integrate into genome
-inject ES cells into blastocysts for implanting into pseudo-preg female
Knock-in (genetic engineering)
mutations added into endogenous gene
CRISPR/Cas9 technology
gene-editing in embryonic stem cells
single guide RNA directs nuclease into specific gene site which activates gene and cuts out DNA
Knock-in Process
swap normal piece DNA with mutation
Knock-in & Knock-out pros/cons
Pros: no random insertion | fine-tuning
Cons: long | expensive | embryonic lethality | protein w/ false genotype possible