Exam III new material Flashcards
spontaneous lesion
small chemical modifications at a NT
depurination- sensitive to hydrolysis = missing base
deamination- C–> Uracil by addition of H2O
don’t distort backbone
Bulky lesions
covalent interactions due to UV, carcinogens, oxidative damage. Distorts double helix
copy errors
DNA pol incorporates incorrect base
Mutagen
an agent that causes DNA damage
chemical or physical
carcinogenic if causes division
chemical mutagens
intercalating agent- in between strands of DNA in helix causing stretching
base analogs- inserts into a base space but not actually a base
Indirect activating mutagens
require metabolic process to cause damage
Physical mutagens
UV radiation. shorter wavelengths=more damage. A->B->C long->short
A: oxidative
B: induces dimers in adjacent pyrimidines
C: germicide C doesn’t make it to surface of earth
Ionization radiation: ss breaks, ds breaks, cross linking
Ionization radiation
electromagnetic we use in medicine. because can travel further.
gamma rays are used in cancer therapy– ds breaks are the purpose to kill cells
Particulate radiation
not wavelengths, can’t travel very far. don’t use in medicine
Two types of DNA Repair
repair bases directly
repair bases that are incorrectly paired or bulky lesions etc..
3mechanisms of DNA repair
reverse, remove, tolerate
Base excision repair
DNA glycosylase removes purine/pyrimidine but leaves backbone
AP endonuclease recognizes site and cuts our backbone
results in single NT nick so DNA pol comes along and ligase seals
Nucleotide Excision repair, bulky
multienzyme complex
scans for distorted double helix and cleaves on either side of distortion
helicase removes ss between cleavage sites
pol and ligase come through
mismatch repair
DNA mismatch by DNA pol. following behind replication fork. To locate new synthesized strand use okazaki fragments. MutS and MutL, direct excision of entire sequence near mismatch
piece of DNA is super damaged what back up mech do we have
backup polymerases. less accurate, take guesses
trans-lesion synthesis
Transcription coupled repair
coding regions- exons. RNA pol stalls-> mech for nucleotide excision repair proteins to cut out lesion.
Double strand breaks
non homologous repair- Ku70/80 proteins recruit DNA PK.always lose NT
homologous repair, sister chromatid nearby and used as template. Holiday junction. Recognized by Rad51 and make 3’ overhangs.
DNA damage checkpoints
G1/S
S
G2/M
ATM
associates with damage and starts kinase cascade for Chk1 and Chk2 proteins to activate p53–>tumor suppressor
p53
usually ubiquitinated my Mdm2
when p53 Pi it will Pi p21 which will inhibit Cyclin/cdk complexes in cell cycle
2 major issues with stem cells
technological: Driving differentiation
and applying safety
Stem cells
have to be able to differentiate into something else and have to be able to proliferate
totipotent
total potential to be anything
pleuripotent
more directed than totipotent
multipotent
more directed than pleuripotent (bone marrow cells)
unipotent
near end of cell proliferation stage. “Transant amplifying cell”
Progenitor cell ex: keratinocytes
embryonic stem cells
totipotent. ability to take a single cell and grow a complete organism
post-natally derived
new borns. umbilical cord blood.placenta-derived:
pleuripoteny/multipotent
cord blood cell banks
adult derived stem cells
bone marrow adipose tissue
Induced pleuripotent cell
take a cell, fibroblast, keratinocyte. treat with developmental genes. Ox4 Klf4 Sox2 CMyc
cloning
somatic cell nuclear transport. take egg, take out nucleus and put in nucleus from a cell.
concerns: aging of DNA, telomere length
Process of induced pleuripotent cells
harvest donor cells, place with feeder cells(provide nutrients). transfect with genes of choice and select after proliferation.
mouse experiment with sickle cell anemia
c-Myc function
tumorogenisity function. so take out once grown cells that you want
sources of fat for stem cells
from surgeries (like around kidney) or from liposuction
what type of cell is fat stem cell
mesenchymal stem cell
potential use of stem cells
wound healing, diabetes, cardiac infarcts, bladders
Immunomodulation and stem cells
T regulatory cells- replace these using stem cells
Ketchums work with Islets
using a combination of mouse islets and hASCs, 5-7 days return to normal glycemic level
these mice become diabetic spontaneously
describe experiment with mouse liver
co transfected hASC and MSC and endothelial cells to produce liver buds. bile was produced and hepatic proteins but no biliary tree
hESCs transplant
changed medium to drive differentiation In VITRO
then transplanted into diabetic mice 32 weeks post injection
bone had grown too.
prochymal and chonrogen
chondrogen- knee reconstruction, causes cartilage growth
prochymal
regenexx
not used in USA because of FDA
proliferative in vitro
Cell senescence
telomerase activity over time. limited number of cell divisions- hayflick limit
hybridoma
inject mouse with antigen. wait till makes ab then select ab in B lymphocytes and insert into a tumor cell. infinite ab
structure of antibody
2 fab domains- bind antigen
1 fc- functions in signaling
are lymphocytes specific to antigens
yes
polyclonal ab
ab produced by inoculating an animal against antigen. from multiple lymphocytes against multiple epitopes
ELISA
not microscopy, HIV and pregnancy
Proteins in electrophoresis
denatured then add SDS which adds negative charge
northern blotting
mRNA
southernblotting
DNA
western blotting
immunoblotting, antibodies
2 ways to replicate DNA
1: restrictive endonucleases on each side
2: mRNA–> cDNA via reverse transcriptase, more efficient for specific gene
DNA vector needs
Restriction endonuclease site
Autonomous origin of replication (has own machinery)
A gene for antibiotic resistance
Recombinant proteins
produce large amounts of protein for therapeutic use.
Expression Vectors- require sequence to express protein. Need bacterial promoter and start site
gene therapy
introduce a normal copy of a gene into defective tissue
Retroviruses gene therapy
permanent because incorporate into host genome, problem is it can insert anywhere, not directed
Only used in cells that are actively dividing
no immune response
Adenoviruses gene therapy
not integrated in host DNA, very transient, constantly re-treat
can give to senescent cells
large immune response
Transgenic animals
insert or delete genes from animals using cDNA.Inject into ovuum and offspring will have the gene in all cells and germ line
Blastocyst
offspring is chimeric in somatic and stem cells next generation will not be
2 basic components of connective tissue
ECM and cells
ECM 3 constituents
fibers, ground substance, tissue fluid
2 types of cells in CT
“fixed” and hematogenous
3 traditional basic CT fibers
collagen
reticular (type III collagen)
and elastic
characteristics of collagen
fibrillar, some globular add tensile strength
Collagen I
fibril 67nm most abundant- tendon skin, fascia
Collagen II
fibril 67nm cartilage, nucleus pulposus, notochord
Collagen III
fibril 67nm skin, blood vessels, lymph nodes, spleen
Collagen IV
globular, basal lamina of epithelial cells
Collagen VII
small fibers 67nm, anchoring fibrils in basal laminae
procollagen
can self assemble. Type I collagen, triple helix formation. 2 chains of 1 alphaprocollagen and 1 chain of 2 alphaprocollagen
collagen fibril
show periodicity, staggered alignment of procollagen makes it very strong
collagen fiber
collagen fibril bundles
length of repeating banding pattern
67 nm
length of tropocollagen helix repeating unit
300nm
Elastic fibers composed of
elastin(amorphous globule protein) and fibrillin (fibrillar protein forms sheath)
elastin core, glycine and proline
surrounded by fibrillin microfibrils that are held together by desmosine and isodesmosine
Marfans
fibrillin mutation because elastin has no elasticity
ground substance of ECM
GAGs- unbranched polysacs
proteoglycans: GAGs+proteins covalent
adhesive glycoproteins: large multi-domain glycoproteins that interact with integrins, collagen fibers and proteoglycans
GAGs
repeating dissacharides
Types of GAGs
hyaluronic acid(HUGE) does not covalently bind because doesn’t have sulfate, keratan sulfate heparan sulfate, heparin, chondroitin-4 sulfate, chondroitin-6 sulfate, dermatan
How GAGs function
over 100 units long, GAG has overall (-) charge and attracts cations- high [Na] = H2O content
H2O=turgor- resistance
Linking protein
used to attach matrix(other GAGs), which are on the core protein aggrecan(another GAG) onto hyaluronic
types of adhesive glycoproteins
fibronectin, laminin, integrins, entactin, tenascin, chondronectin, osteonectin
fibronectin
dimer of alpha subunits with weight 220kD. links cells and ground substances via integrins, collagen and heparin sulfate PG
embryonic cell migration
laminin
trimer, 1alpha 2 beta. Exclusively in basal laminae. 950kD
binds GAGs proteoglycans and adhesive glycoproteins–Collagen IV! entactin integrins and heparan sulfate PG
Integrins
250kD heterodimeric. extracell domain binds parts of ground substance causing intracell cascade
COOH terminal binds to vinculin and talin bind to actin
bonds of integrins
much weaker than most R-ligand, so but many integrins together to strengthen btu still be mobile(taken apart easily)
entactin
collagen IV
tenascin
hexamer binds fibronectin
chondronectin
binds collagen II
osteonectin
binds collagen I
Mucus CT
loose CT with lots of ground substance
jelly like matrix(wharton’s jelly) found in umbilical cord and pulp of developing teeth,
Loose areolar CT
abundant ground substance
cells:fibroblasts adipose cells, macrophages and mast cells.
loosely woven collagen and elastic fibers. has small nerves and blood vessels.
Packs in tissues and organs
Dense CT. 2 types
greater density of loose fibers
regular and irregular
dense irregular CT
random arrangement of collagen bundles
dermis
fascia
dense regular CT
ordered arrangement: tendon, ligaments, aponeuroses
Adipose CT
low fiber and little ground substance. Few fibroblasts hematogenous cells
unilocular
white- single lipid droplet
multilocular
brown- multiple lipid droplets
Elastic CT
fibroblasts, collagen fibers, elastic fibers
wall of large vessel
nuchal ligament
Reticular CT
same as collagen III, liver, adipose, lymph and spleen. fibroblasts and reticular fibers
Blood as CT
all CT components: cells, ECM
fibers: fibrinogen–>fibrin
ground substance–>GAGs(heparin) proteins(albumin)
fluid–>plasma
characterizations of cartilage
rigid flexible and resilient
3 subtypes of cartilage
hyaline, elastic, fibrous
articular cartilage
hyaline, collagen type II
elastic cartilage
type II cartilage, high [ ] elastic fibers
fibrous cartilage
intervertebral disc, tendon with chondrocytes replacing fibroblasts collagen I fibers
cartilage cell types
chondrogenic
chondroblasts
chondrocytes
fibers of cartilage
collagen II (hyaline and elastic) and elastic
ground substance of cartilage is made up of
aggrecan (GAG)
chondronectin (adhesive glycoprotein)
development on cartilage
embryological mesenchymal cells-> chondroblasts->aggregate->secrete fibers and ground substance and separate to become chondrocytes surrounded by matrix
perichondrium, 2 layers
when mesenchymal cells around primordial cartilage condense
fibrous perichondrium, cellular perichondrium
Cartilage growth mechanisms
interstitially (within) and appositionally(periphery and moves down)
hormones controlling cartilage growth
growth hormone, thyroid hormone, gluccocorticoids sex hormones(testosterone, estradiol) Vitamins
Growth hormone-cartilage
stimulate growth thru IGF-1
Thyroid hormone-cartilage
hypertrophic growth, acts directly thru IGF-1
Gluccocorticoids-cartilage
inhibit cartilage growth, down regulate type I collagen.
Vitamin A deficiency
slows cartilage growth and calcification
Vitamin C deficiency
(scurvy) inhibits collagen synthesis
Vitamin D deficiency
inhibits calcification (rickets and osteomalacia)