principles_20190518182821 Flashcards
what are the oxidation states of carbon?
alkane (fats) > alcohol (carbs) > aldehyde > carboxylic acid > carbon dioxide
what is the first law of thermodynamics?
energy neither created or destroyed
what is the second law of thermodynamics?
energy converted from one form to another, some becomes unavailable to do work
where is collagen triple helix found?
connective tissue
role of smooth ER
synthesis of steroid hormones
role of rough ER
synthesises polypeptides
role of golgi apparatus
receives materials from ER and distributes, can also modify proteins
what is nucleoside
base and sugar
what are purines
adenine and guanine
what are pyrimidines
uracil, thymine and cytosine
what kind of bonds between 3 OH group and 5 triphosphate
phosphodiester
what is the leading strand
always has free 3’ end (dna always synthesised in 5-3 direction)
role of rRNA
combines with proteins to form ribosomes found in nucleolus
role of tRNA
carries amino acids to be incorporated into protein anticodon consists of 3 nucleotides
role of mRNA
carries genetic information for protein synthesis
what are the three types of RNA which eurkaryotic cells have
pol I, II and IIIpol II synthesises all mRNA
what is TFIID
general transcription factor required for all Pol II transcribed genes
steps in the initiation of translation
GTP provides energy, ribosomal subunit binds to 5’ end, initiator tRNA (located in P site) pairs to start codon and large subunit joins assembly and initiator tRNA
steps in the elongation of translation
elongation factor brings aminoacyl-tRNA to A site where second elongation factor regenerates the first to pick up next a-tRNA
what catalyses the peptide bond formation between amino acids in P and A sites
peptidyl transferase
steps in termination of translation
occurs when A site of ribosome encounters a stop codon (UAA, UAG, UGA)
where are free ribosomes found
in cytosol proteins for cytosol, nucleus or mitochondria post translational
where are bound ribosomes found
plasma membrane, ER, golgi, secretionco-translational
what are enzymes without cofactor called
apoenzymes
what are enzymes with cofactor called
holoenzymes
what is vmax?
maximal rate of reaction at unlimited substrate concentrationintersect of straight line with Y
what is Km
michaelis constant - 50% vmax intersection with X
what happens in competitive inhibition
km varies
what happens in non-competitive inhibition
vmax varies
what is the difference between haemoglobin and myoglobin
haemoglobin shows allosteric regulationmyoglobin - michaelis menten
anabolism
requires energy, endergonic and reductive
catabolism
breakdown to produce energy, exergonic and oxidative
basic steps in glycolysis
hexokinase phosphorylates glucosephosphofructokinase phosphorylates fructose-6-phosphatepyruvate kinase converts phosphoenolpyruvate to pyruvate
what is the fate of NAD
reduced to NADH+ H+ in glycolysis regenerated through oxidative metabolism of pyruvate
basic steps in aerobic metabolism of pyruvate
enters matrixconverted to acetyl-coA (by PDC)condenses with 4c to form 6c compound this 6c decarboxylated twice - yields CO24 oxidation reaction - yeilds NADH+ H+ and FADH2GTP formed 4c compound recreated
what enzyme of TCA is integrated in inner membrane of mitochondria rather than matrix?
succinate dehydrogenase
how many electrons transferred in conversion of NAD+ to NADH+ H+
3 pairs
how many electrons needed to reduce FAD to FADH2
1 pair
what does TCA cycle generate from each a-coA
3 NADH+ H+1 FADH21 GTP2 CO2
what is the first step of oxidative phosphorylation (electron transport)
electrons from NADH enter at complex 1, electrons from FADH2 enter at complex II (TCA), electrons handed down from higher to lower redox potentials, transferred onto O2 ti form H2Otransfer of electrons through respiratory chain is coupled to H+ transport 3/4 complexes pump H+ (1, 2 and 4)forms electrochemical gradient - more protons in intermembrane space than matrix, matrix negative so protons attracted
what is second step of oxidative phosphorylation
ATP synthesis
what inhibits oxidative phosphorylation
cyanide, azide and CO inhibit transfer of electrons to O2 (no proton gradient can be formed)
what is the final balance from respiration
glycolysis - 2 ATPTCA cycle - 2 ATP (2 GTP)glycolysis, PDH, TCA cycle - 25 ATP and 10 NADH+ H+TCA cycle - 3 ATP (2 FADH2)
how many ATP molecules does one glucose yeild
30-32
what are the stages of cell cycle
G1 - S - G2 - M - G1DNA synthesis at S
basics of DNA synthesis
DNA helicase unzips DNA, DNA polymerase copies 5-3 strand then the 3-5 strand in okazaki fragments which DNA ligase joins
what causes sequence variations within a gene
changes in promotor sequence and change in exon sequence
what causes sequence changes in DNA between genes
SNPslarger deletions or duplications
what is chromosome of normal female
46 XX
what is aneuploidy
whole extra or missing chromosome
47XY + 21
down syndrome, trisomy 21
47XY + 14
miscarriage, trisomy 14
47 XY + 18
edward syndrome, trisomy 18
45 X
turners syndrome
47 XXY
klinefelters syndrome
what is a roberstonian translocation
two acrocentric chromosomes stuck end to end - increases risk of trisomy in pregnancy
what is microarray CGH
1st line chromosome test, detects any missing of duplicated piece of chromosomesaCGH - paediatric
what is gonadal mosaicism
causes recurrence risk for autosomal dominant condition even if parent unaffected
what is somatic mosaicism
all cells suffer mutations as they divide, repair mechanisms exist
what genes start cells dividing when switched on?
oncogenes
what is mendelian disorder
disease caused by change in single gene umbrella term for autosomal dominant, recessive, x linkedhigh penetrance, small environmental contribution
what is chance of children getting disease in X linked mutations
mother carrier - 50% chance daughter is carrier and 50% chance male is affected no male - male transmission
what does mitochondrial DNA contain
important genes for mitochondrial metabolic pathways and ribosomal RNAs
what kind of mutations occur in mitochondria
point mutations and deletions, inherited almost exclusively materally
symptoms of mitochondrial mutations
myopathy, diabetes, deafness, optic atrophy, stroke like episodes and encephalitis
how do mutations cause disease
only having one working copy not enough (haploinsufficiency) so abnormal protein interferes with normal (dominant negative) and mutation activates gene resulting in loss of heterozygosity
what is the characteristics of a multifactorial disease
genetic change just another risk factor and penetrance for any one mutation is low
what is imprinting (non mendelian)
differences in gene expression depending on wether gene is maternally or paternally inherited
angelman syndrome is example of non mendelian inheritance, what symptoms?
neurogenetic disorder: developmental delay, intellectual disability, ataxia, epilepsy, happy, frequent laughing eg - chromosome 15
what is heteroplasmy (non mendelian)
different daughter cells contain different proportions of mutant mitochondria
what do drug metabolism genes do
metabolise carcinogens
what is the mechanism of gene activation
duplication of gene, activation of gene promotor and change in amino acid sequence
what is FISH
can light up specific bit of chromosome if you know which bit to light up
mutation in what gene can cause breast cancer?
BRCA1 - carriers have 80% risk of breast or ovarian
characteristics of rare autosomal forms of breast cancer
young age of onset, many cancer and rare tumours
characteristics of multifactorial predisposition breast cancer
everyone at same risk anyone with family history at increased risk
what is components of inner cytosol
solution of proteins, electrolytes and carbohydrates
what is the components and role of cytoskeleton
determines shape and fluidity of cells made from thin, intermediate filaments and microtubules
microfilaments
7nm, composed of actin
intermediate filaments
> 10nm, composed of proteins
microtubules
25nm, composed of tubulin, originate from centrosome, polar and dynein and kinesin attach to them and move them along
what are occluding junctions
link cells to form diffusion barrier (tight junctions)
what are anchoring juncitons
provide mechanical strength, link submembrane actin bundles of adjacent cells (adherent junctions)
what are the role of desmosomes in anchoring junctions
link submembrane intermediate filaments of adjacent cells
what are the role of hemidesmosomes in anchoring junctions
link submembrane intermediate filaments of cells to extracellular matrix through transmembrane proteins
what are communicating junctions
allow movement of molecules (gap junctions) each junction studded with pores produced by connexion proteins
haematoxylin dye
purple, basic dye (affinity for acidic molecules)
eosin dye
pink, acidic dye
sqaumous epithelium
flattened
cuboidal epithelium
cube
columnar epithelium
tall and thin
what are the different kinds of glandular epithelia
exocrine (product secreted towards basal end of cell, distributed by vascular system, ductless glands) and endocrine (apical end of cell, ducted glands)
what are the three types of cartilage
hyaline (articular surface, tracheal rings, costal cartilage, epiphyseal growth plates)elasticfibrocartilage
what is the outer shell of a cortical bone which makes up the shaft
diaphysis
what occupies end of cancellous/trabecular bone
epiphyses
what is the contents of the extracellular matrix of connective tissue
fibres (collagen, reticular and elastic fibres), ground substance and tissue fluid
what are the cells of connective tissue
fibroblasts, adipose cells, osteocytes, chondrocytes
characteristics of smooth muscle
involuntary and non-striated
characteristics of skeletal muscle
voluntary and striated, multinucleated nuclei are elongated and located at periphery, just internal to cell membrane (sarcolemma)
characteristics of cardiac muscle
involuntary and striated, have intercalated discs which contain multiple intercellular junctions to maintain mechanical integrity
what is the connective tissue coat surrounding nervous tissue
meninges in CNSepineurium in PNS
role of astrocytes (type of glia)
support and ion transport
role of oligodendrocytes (type of glia)
produce myelin
role of microglia (type of glia)
provide immune surveillance
role of schwann cells (PNS) - type of glia
produce myelin and support axons
types of salivary glands
parotid, submandibular and sublingual
1st layer of GI tract
mucosa:epithelium - sits on basal laminalamina propia - loose connective tissue muscularis mucosae - thin layer smooth muscle
2nd layer of GI tract
submucosa: loose connective tissue
3rd layer of GI tract
muscularis externa: 2 thick layers of smooth muscle, inner circular and outer longitudinal layer
4th layer of GI tract
serosa or adventitia: outer layer of connective tissue that either suspends digestive tract or attaches to other organs
characteristics of protective mucosa
non-keratinised stratified squamous epithelium
characteristics of absorptive mucosa
simple columnar epithelium with villi and tubular glands
characteristics of secretory mucosa
simple columnar epithelium with extensive tubular glands
in the large intestine (protective and absorptive) the outer longitudinal smooth muscle is not continuous, what is it?
found in 3 muscular strips called teniae coli
what is the nervous tissue in the digestive tract?
enteric nervous system - ganglia between 2 muscle layers that make up muscularis externa
product of exocrine gland of pancreas
pancreatic digestive enzymes
product of endocrine gland of pancreas
islets of langerhans - produce insulin
what does the kidney contain
nephrons
what is the different layers of artery
tunica intima (endothelial cells)tunica media (smooth muscle)tunica adventitia (supporting connective tissue)
layers of arteriole
1 or 2 layers of smooth muscle in tunica media and almost no adventitia
layers of capillaries
endothelial cells and basal lamina have pericytes (connective tissue cells with contractile properties)
where are continuous capillaries found
muscle, nerve, lung, skin
where are fenestrated capillaries found
have poresgut mucosa, endocrine glands and kidney
where are sinusoidal capillaries found
large gaps liver, spleen, bone marrow
layers of venules
endothelium and pericytes
layers of veins
tunica intima, thin continuous tunica media, obvious tunica adventitialarge veins have thick tunica adventitia
definition of variolation
exposure of individual to the contents of dried smallpox pustules from infected patient
what is commensal bacteria
friendly (barrier to infection) which competes with pathogen for scarce resources
what receptors involved in innate immune system
PAMPs : PRRs
what receptors involved in adaptive immune response
antigens : antigen receptors
what are phagocytes
neutrophils, monocytes, macrophages, dendritic cellsingest and kill bacteria important source of cytokines
what is the role of eosionophils, mast cells and basophils
granular cells which release chemicals for acute inflammation
what is the role of complement proteins
inflammation and defence
mast cells
reside in tissues and protect mucosal surfaces, degranulate and release histamine and tryptasegene expression - TNF, chemokines and leukotrienes
basophils and eosinophils
circulate in blood and recruited to sites of infection
by what three mechanisms do neutrophils attack pathogens
phagocytosis release of antimicrobial peptides and degradative proteasesgenerate extracellular traps
what do active neutrophils produce
TNF (cause cell death)
what do dead and dying neutrophils + tissue cells + microbial debris produce
pus
what are monocytes
precursor of macrophages - limit inflammation and involved in tissue repair and wound healing
role of macrophages
reside in tissues, ingest and kill pathogens, clear debris, inflammation, tissue repair and antigen presentation
role of dendritic cells
immature cells in peripheral tissues but when in contact with pathogen, mature and migrate to secondary lymphoid tissue where they stimulate adaptive response
CD4+ cells
helper T cellregulator of immune system and activate other immune cells
CD8+ cells
cytotoxic T cellskill virally infected body cells
what are interferons
type of cytokineanti-viral function
what are TNF
type of cytokinepro-inflammatory
what are chemokines
type of cytokinecontrol and direct cell migration
what are interleukins
type of cytokineIL2 - t cell proliferationIL10 - anti inflammatory
what is the acute phase response
result of infection, trauma or infectionliver produces acute phase proteins in response to pro inflammatory cytokines (IL1, IL6 and TNF)
what is the complement system
family of proteins produced in liver that circulate in blood which enter infected and inflamed tissues
what are the functions of complement system
membrane attack complexopsonisation chemotaxisclearance of immune complexes inflammation
what is opsonisation and what causes it
coating of microorganisms by immune proteins (opsonins)caused by C3b, CRP, antibodiesenhances phagocytosis
how does complement mediated lysis work
C5b bind to pathogen surfaceC6, C7, C8, C9 and C5b = membrane attack complex
how does complement mediated inflammation and chemotaxis work
C3a and C5a bind to receptors on mast cells / basophils and release granules which produce histamine and chemokines
what is a T cell antigen receptor
membrane bound protein heterodimer has alpha and beta chain
what is a B cell antigen receptor
membrane bound antibody (IgM or IgD)has light and heavy chain and disulphide bridges
how are pathogens activated
MHC/HLA proteins display peptide antigens to T cellsclass 1 - expressed on all nucleated cells - present peptide antigens to cytotoxic T cellsclass 2 - only dendritic cells, macrophages and B cells - present peptide antigens to helper T cells
what does each antibody contain
each heavy and light chain contains variable region (antigen binding site) and a constant domain
IgG
most abundant, actively transported across placenta
IgM
surface bound monomer, 1st Ig type produced in immune response
IgD
extremely low levels in blood, surface bound
IgE
extremely low levels normally, produced in allergic response
IgA
2nd most abundant type, monomeric form in blood, dimeric form in breast milk, saliva, tears and mucosal secretions
what types do mothers pass to baby
IgG and dimeric IgA
what is the effector function of antibodies
clearance mechanisms - mediated interaction of constant region with effector molecules by complement and Fc receptors
what is agglutination
immune complex formation
other characteristics of antibodies
can function as opsoninscan stimulate NK cellscan trigger allergic response can undergo class switching - b cells switch antibody heavy chain segment
what is the germinal centre reaction
b cell proliferation, antibody heavy chain switching, generation of high affinity antibodies and differentiation into plasma cells and memory B cells
what is pathogenicity
ability of a microorganism to produce disease
how do bacteria replicate
binary fission
what is microaerophilic atmosphere
reduced o2 conc and enriched co2
what secretes exotoxin
gram positive bacteria, produced inside cell and exported from it
what secretes endotoxin
gram negative bacteria, part of gram negative bacterial cell wall
what are moulds
type of fungi, produce spores and hyphae eg aspergillus
what are yeasts
type of fungi, single cells that reproduce by budding eg candida
characteristics of gram positive streptococcus
aerobic cocci chainsalpha haemolysis (partial) - strep pneumoniae (pneumonia, meningitis) and strep viridans (endocarditis)beta haemolysis (complete) - group A strep (throat and skin infection) and group B strep (neonatal meningitis)
characteristics of gram positive enterococcus
aerobic, cocci chains, non-haemolytic, normal gut commensal and cause of UTI
characteristics of gram positive staphylococcus
cocci clusterscoagulase positive (golden) - staph aureus - wound, skin infection - flucloxacillincoagulase negative (white) - staph epidermis - normal skin commensal, IV line infection
process of fever
antigen attacks macrophage, releases cytokines, travel to anterior hypothalamus of brain, stimulates production of prostaglandin E, resets bodys thermal set point and body shivers to conserve heat (slows growth of pathogens)
characteristics of gram negative cocci
diplococci, aerobic eg neisseria gonorrhoea and neisseria meningitidis
characteristics of coliforms
gram negative bacilli, aerobic (can be anaerobic)gut commensals eg e.coli, klebsiella, proteusgut pathogens eg salmonella, shigella, e.coli O157 gentamicin first line antibiotic
characteristics of strict aerobes
gram negative bacillieg pseudomonas aeruginosa and legionella pneumophilia
what are the types of spiral or curved gram negative bacilli
campylobacter - food poisoning helicobacter pylori - gastritis
what is haemophilus influenzae
small gram negative bacillus, common cause of chest infection (esp in COPD)
characteristics of gram positive anaerobic bacilli
CLOSTRIDIUM SPPpart of normal bowel flora, produces spores and exotoxin that cause severe tissue damage
characteristics of gram negative anaerobic bacilli
bacteroides sppnormal gut commensals, only pathogenic when found in other sites metronidazole - 1st line treatment for anaerobes
characteristics of mycobacteria
thick waxy outer coat acid fast bacilli or ZN stain TB
what is the process of gene transfer by transformation
DNA from dead bacteria taken up by living and incorporated in plasmids
what is process of gene transfer by conjugation
sex pilus (fimbria) produced by one bacteria through which plasmid DNA can be transferred
what is the process of gene transfer by transduction
viruses infecting bacteria can transfer bits of DNA from one bacterium to another
definition of bactericidal
kill bacteria
definition of bacteriostatic
inhibit bacterial growth
what are antibiotics what work on cell wall
penicillin cephalosporins (ceftriaxone)glycopeptides (vancomycin)
how to distinguish between gram positive and gram negative organisms
positive - thick peptidoglycan and single phospholipid bilayer negative - think peptidoglycan and two phospholipid bilayers
what are the different kinds and the characteristics of penicillin
flucloxacillin, co-amoxiclav and amoxicillininhibit cell wall synthesis by preventing cross linking of PGN subunits bactericidal, narrow spectrumbeta-lactam antibiotic excreted rapidly via kidneystype 1 hypersensitivity
characteristics of cephalosporins
inhibit cell wall synthesis bactericidal beta-lactam antibitic may cause c. diff excreted by kidneys
characteristics of glycopeptides
binds to end of growing chain, prevents cross linking and weakens cell wallbactericidal only active against gram positive cell wall excreted in urine
what are the antibiotics which inhibit protein synthesis
macrolides (erythromycin, clarithromycin, azithromycin) - bacteriostatictetracyclines (doxycycline) - bacteriostaticaminoglycosides (gentamicin) - bactericidal