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Microbial physiology. Microbial metabolism. Enzymes. Nutrition. Bioenergetics. Bacterial growth and multiplication.
Dr. Elena RomancencoDepartment of Microbiology
Microbial physiology. Microbial metabolism. Enzymes. Nutrition. Bioenergetics. Bacterial growth and multiplication.
Microbial metabolism
the Greek metabole, meaning change.
Metabolism - the sum of the biochemical reactions required for energy
generation AND the use of energy to synthesize cell material from small
molecules in the environment.
Why do we must know the metabolism of bacteria?
Because we want to know how to inhibit or stop bacteria growth and want to control their metabolism.
Metabolism
Two components: Anabolism - biosynthesis
building complex molecules from simple ones requires ENERGY (ATP)
Catabolism - degradation breaking down complex molecules into simple ones generates ENERGY (ATP)
3 Biochemical Mechanisms Utilized Aerobic Respiration Anaerobic Respiration Fermentation
Catabolic reactions or sequences produce energy as ATP adenosine triphosphate , which can be utilized in anabolic reactions to build cell material from nutrients in the environment.
METABOLIC DIVERSITY
Bacterial metabolism is classified into nutritional groups on the basis of three major criteria:
1. Source of energy, used for growth
2. Source of carbon, and
3. Sours of electron donors used for growth.
1. ENERGY SOURCE
a. Phototrophs —can use light energy b. Chemotrophs —must obtain
energy from oxidation-reduction of external chemical compounds
2. CARBON SOURCE
a. Autotrophs —can draw carbon from carbon dioxide
b. Heterotrophs —carbon from organic compounds
c. Mixotrophic – carbon is obtained from both organic compounds and by fixing carbon dioxide
These requirements can be combined:
1. Photoautotrophs - light energy, carbon from
2. Photoheterotrophs —light energy, carbon from organic compounds
3. Chemoautotrophs —energy from chemical compounds, carbon from CO2
4. Chemoheterotrophs —energy from chemical compounds, carbon from organic compounds
CHEMOHETEROTROPHS
Energy and carbon both come from organic compounds, and the same compound can provide both. Specifically, their energy source is electrons from hydrogen atoms in organic compounds.
Saprophytes—live on dead organic matter Parasites—nutrients from a living host
This group (more precisely chemoorganoheterotrophic) includes most bacteria as well as all protozoa, fungi, and animals. All microbes of medical importance are included in this group.
Microbial physiology. Microbial metabolism. Bioenergetics. Enzymes. Nutrition. Bacterial growth and multiplication.
Energy – capacity to do work or cause change
Endergonic reactions – consume energy
Exergonic reactions – release energy
Energy Production
3 Biochemical Mechanisms Utilized
Aerobic Respiration Anaerobic Respiration Fermentation
Aerobic and anaerobic respiration
Aerobic respiration – terminal electron acceptor is oxygen
Anaerobic respiration – terminal electron acceptor is an inorganic molecule other than oxygen (e.g. nitrogen)
Aerobic Respiration
Molecular Oxygen (O2) serves as the final e- acceptor of the ETC
O2 is reduced to H2O Energy-generating mode used by aerobic
chemoheterotrophs General term applied to most human pathogens Energy source = Oxidation of organic compounds Carbon Source = Organic Carbon
3 Coupled Pathways Utilized Glycolysis Kreb’s Cycle or Tricarboxylic Acid Cycle or Citric Acid
Cycle Respiratory Chain or Electron Transport Chain (ETC)
1. Glycolysis (splitting of sugar) Carbohydrate (CHO) Catabolism
Oxidation of Glucose into 2 molecules of Pyruvic acid
CHO’s are highly reduced structures (thus, H-donors); excellent fuels
Degradation of CHO thru series of oxidative reactions
End Products of Glycolysis: 2 Pyruvic acid 2 NADH2 2 ATP
Glycolysis
2. Krebs Cycle (Citric Acid Cycle,TCA) Series of chemical reactions that begin and end with
citric acid
1. Initial substrate – modified end product of Glycolysis• 2 Pyruvic Acid is modified to 2Acetyl-CoA, which enters
the TCA cycle 2. Circuit of organic acids – series of oxidations and reductions
• Eukaryotes – Mitochondrial Matrix• Prokaryotes – Cytoplasm of bacteria & Cell Membrane
Products: 2 ATP 6 NADH2 2 FADH2 4 CO2
TCA cycle
3. Electron Transport System Occurs within the cell membrane of
Bacteria
Chemiosomotic Model of Mitchell 34 ATP
Electron transport system
Overview of aerobic respiration
Anaerobic respirationUtilizes same 3 coupled pathways as Aerobic RespirationUsed as an alternative to aerobic respiration
Final electron acceptor something other than oxygen:
NO3- : Pseudomonas, Bacillus.
SO4-: Desulfovibrio
CO3-: methanogens
In Facultative organismsIn Obligate anaerobes
Lower production of ATP because only part of the TCA
cycle and the electron transport chain operate.
Fermentation
Incomplete oxidation of glucose or other carbohydrates in the absence of oxygen
Uses organic compounds as terminal electron acceptors
Effect - a small amount of ATP
Production of ethyl alcohol by yeasts acting on glucose
Formation of acid, gas & other products by the action of various bacteria on pyruvic acid
Fermentation
Fermentation may result in numerous end products
1. Type of organism
2. Original substrate
3. Enzymes that are present and active
Fermentation End Products
Metabolic strategies
Pathwaysinvolved
Final e- acceptor ATP yield
Aerobic respiration
Glycolysis, TCA, ET
O2 38
Anaerobic respiration
Glycolysis, TCA, ET
NO3-, So4
-2, CO3
-3
variable
Fermentation
Glycolysis Organic molecules
2
Many pathways of metabolism are bi-directional or amphibolic
Metabolites can serve as building blocks or sources of energy Pyruvic acid can be converted into amino acids
through amination Amino acids can be converted into energy
sources through deamination Glyceraldehyde-3-phosphate can be converted
into precursors for amino acids, carbohydrates and fats
Redox reactions
Always occur in pairs.
There is an electron donor and electron acceptor which constitute a redox pair.
Released energy can be captured to phosphorylate ADP or another compound.
Basic reaction
Biological reaction
35
: electron removal
: electron uptake
ATP
3 part molecule consisting of adenine – a nitrogenous base ribose – a 5-carbon sugar 3 phosphate groups
Removal of the terminal phosphate releases energy
Adenosine Tri Phosphate ADP + energy + phosphate
ATP contains energy that can be easily released (high-energy or unstable energy bond)
Required for anabolic reactions
ATP
Formation of ATP
1. substrate-level phosphorylation
2. oxidative phosphorylation, ( reduced chemicals)
3. Photophosphorylation (reduced chlorophyll molecules)
Uses of ATP: Energy for active transport Energy for movement Energy for synthesis of cellular components
ALL SYNTHESIS REACTIONS INVOLVE USE OF ENERGY
Substrate-level phosphorylation
Phosphorylation of glucose by ATP
Lipid Metabolism
Lipids are essential to the structure and function of membranes
Lipids also function as energy reserves, which can be mobilized as sources of carbon
90% of this lipid is “triacyglycerol” triacyglycerol lipase glycerol + 3 fatty acids
The major fatty acid metabolism is “β-oxidation”
Lipid catabolism
Lipids are broken down into their constituents of glycerol and fatty acids
Glycerol is oxidised by glycolysis and the TCA cycle
Lipids are broken down to 2 carbon acyl units where they enter the TCA cycle
Protein Catabolism
PROTEIN CATABOLISM
Intact proteins cannot cross bacterial plasma membrane, so bacteria must produce extracellular enzymes called proteases and peptidases that break down the proteins into amino acids, which can enter the cell.
Many of the amino acids are used in building bacterial proteins, but some may also be broken down for energy. If this is the way amino acids are used, they are broken down to some form that can enter the Kreb’s cycle. These reactions include:
1. Deamination—the amino group is removed, converted to an ammonium ion, and excreted.
2. Decarboxylation—the ---COOH group is removed3. Dehydrogenation—a hydrogen is removed
Tests for the presence of enzymes that allow various amino acids to be broken down are used in identifying bacteria in the lab.
Catobolism of organic food molecules
Proteins and carbohydrates are degraded by secreted enzymes – proteases and amylases
Amino acids must be deaminated for further oxidation
Microbial physiology. Microbial metabolism. Enzymes. Bioenergetics. Nutrition. Bacterial growth and multiplication.
Growth and multiplication
mode: Binary fissionmode: Binary fission
Bacterial Cell Division
1. Replication of chromosome
2. Cell wall extension
3. Septum formation
4. Membrane attachment of DNA pulls into a new cell.
It is an increase in all the cell components, which ends in multiplication of cell leading to an increase in population.
It involves - an increase in the size of the cell & an increase in the number of individual cells.
Bacteria divide by binary fission.
Growth
Generation time
Interval of time between two cell divisions
OR The time required for a bacterium to
give rise to 2 daughter cells under optimum conditions
Also called population doubling time.
Generation time
Coliform bacilli like E.coli & other medically important bacteria – 20 mins
Staphylococcus aureus- 27-30 mins
Mycobacterium tuberculosis - 792-932 mins
Treponema pallidum -1980 mins
Colony – formed by bacteria growing on solid media. (20-30 cell divisions)
Each bacterial colony represents a clone of cells derived from a single parent cell.
Turbidity – liquid media - 107-109 cells/ml
Biofilm formation – thin spread over an inert surface.
Growth form in Laboratory
Solid medium
Colony
Liquid medium
Bacterial biofilm
Cell Counts ... many ways
2 methods – Total cell count - Viable cell count
Bacterial counts
Total Count
Total number of cells in the sample = living + dead.
Can be obtained by : Direct counting under microscope using
counting chambers.
Counting in an electronic device – Coulter counter.
Counting chambers
Over method
Direct counting using stained smears - by spreading a known volume of culture over a measured area of slide.
Opacity measurements using an absorptiometer/ nephalometer.
Chemical assays of cell components.
Turbidity- a spectrophotometer measures how much light gets
through
Compared to known controls, MacFarland controls
Viable Cell Count
Measures the number of living cells.
Methods – Surface colony count Dilution method Plating method
Number of colonies that develop after incubation gives an estimate of the viable count.
Plate counts
When a bacterium is added to a suitable liquid medium and incubated, its growth follows a definite course.
If bacteria counts are made at intervals after inoculation & plotted in relation to time, a growth curve is obtained.
Shows 4 phases : Lag, Log or Exponential, Stationary Decline.
Bacterial Growth Curve
Phases of Growth Curve
1. Lag phase – No increase in number but there may be an increase in the size of the cell.
2. Log OR Exponential phase – cells start dividing and their number increases exponentially.
3. Stationary phase – cell division stops due to depletion of nutrients & accumulation of toxic products.
- equilibrium exists between dying cells and the newly formed cells, so viable count remains stationary
4. Phase of Decline – population decreases due to the death of cells – autolytic enzymes.
Phases of Growth Curve
Morphological & Physiological alterations during growth Lag phase – maximum cell size towards the
end of lag phase.
Log phase – smaller cells, stain uniformly
Stationary phase – irregular staining, sporulation and production of exotoxins & antibiotics
Phase of Decline –involution forms(with ageing)
Availability of Nutrients & H2O Temperature Atmosphere – O2 & CO2 H-ion concentration Moisture & drying Osmotic effects Radiation Mechanical & sonic stress.
Factors Affecting Bacterial Growth
Bacterial Nutrition
Water constitutes 80% of the total weight of bacterial cells.
Proteins, polysaccharides, lipids, nucleic acids, mucopeptides & low molecular weight compounds make up the remaining 20%.
Moisture & Drying
Water – essential ingredient of bacterial protoplasm. Hence drying is lethal to cells.
Effect of drying varies : T. pallidum – highly sensitive Staphylococci sp– stand for months
Spores – resistant to desiccation, may survive for several decades.
Nutrients
Functions– Generation of energy– Synthesis of cellular materials
– Essential nutrients (basic bioelements needed for bacterial cell growth)
– H2O: universal solvent; hydrolyzing agent– Carbon: food & E* source; in form of prot., sugar, lipid– Nitrogen: for prot. syn; nucleic acid syn (purines &
pyrimidines)– Sulfur (sulfate): AA syn (i.e., Cystine)– Phosphate: key component of DNA & RNA, ATP, and
inner & outer membrane phospholipids– Minerals: assoc’d w/ PRO (i.e., Fe:PRO); common
component of enzymes.
Nutrients
2 types1. Macronutrients – needed in large quantities
for cellular metabolism & basic cell structure C, H, O, N
2. Micronutrients – needed in small quantities; more specialized (enzyme & pigment structure & function)
Mn, Zn
– Fastidious Bacteria: microbes that require other complex - nutrients/growth factors ( i.e., Vitamins or AAs)
Vary in the temperature requirements.
Temperature range – growth does not occur above the maximum or below the minimum.
Optimum Temperature – growth occurs best, 37ºC for most pathogenic bacteria.
Temperature
Uptake of nutrients by bacteria
o Passive diffusiono simple diffusiono facilitated diffusion
o Active transport
Psychrophiles: -10 to 20C Psychrotrophs: 0 to 30 C Mesophiles: 10 to 48Ce.g. most bacterial pathogens Thermophiles: 40 to 72C Hyperthermophile: 65 to 110C
77
Some pathogens can multiply in the refrigerator: Listeria monocytogenes
78
Neutral or slightly alkaline pH (7.2 – 7.6) – majority of pathogenic bacteria grow best.
acidic pH – Lactobacilli
alkaline pH -Vibrio cholerae
H-ion Concentration
Osmotic Pressure or Osmolarity
Most bacteria require an isotonic environment or a hypotonic environment for optimum growth.
Osmotolerant - organisms that can grow at relatively high salt concentration (up tp 10%).
Halophiles - bacteria that require relatively high salt concentrations for growth, like some of the Archea that require sodium chloride concentrations of 20 % or higher.
82Similar effect with sugars
Radiation X rays & gamma rays exposure – lethal
Mechanical & Sonic Stress May be ruptured by mechanical stress.
Radiation, stress
Some bacteria require certain organic compounds in minute quantities – Growth Factors OR Bacterial Vitamins.
It can be : Essential – when growth does not
occur in their absence. Accessory – when they enhance
growth, without being absolutely necessary for it.
Growth Factors
Identical with eukaryotic nutrition Vitamin B complex – thiamine riboflavine nicotinic acid pyridoxine folic acid & Vit.B 12
Growth Factors
Primary gases = O2, N2, & CO2
O2 - greatest impact on microbial growth (even if the microorganism does not require it)
Aerobic respiration – terminal electron acceptor is oxygen.
Anaerobic respiration – terminal electron acceptor is an inorganic molecule other than oxygen (e.g. nitrogen).
Presence or Absence of Gases
Strict (Obligate) Aerobes – O2 present, require O2 for growth e.g. Pseudomonas aeruginosa
Obligate aerobe – 20% O2: only grows with O2 Microaerophile – 4% O2: best growth with small amount O2
e.g. Campylobacter spp, Helicobacter spp
Strict (Obligate) Anaerobes – O2 depleted, grow in the absence of O2 & may even die on exposure to O2 e.g. Bacteroides fragilis
Obligate anaerobe: only grows in absence of O2 Aerotolerant anaerobe: anaerobes that “tolerate” +/or survive in O2, but do NOT
utilize O2 during E* metabolism e.g. Clostridium perfringens
Facultative Anaerobe – grows both in presence & absence of O2; but grows BEST under Aerobic conditions; considered to be aerobic organism; O2 present – aerobic respiration for E*; O2 absent – anaerobic pathways (fermentation)
e.g. Staphylococcus spps
Capnophilic organism – requires high CO2 levels eg Neisseria spps
Depending on the O2 requirement
Oxygen-related growth zones in a standing test tube
Oxygen is readily converted into radicals (singlet oxygen, superoxide, hydrogen peroxide, hydroxyl radical)
Most important detoxifying enzymes are superoxide dismutase and catalase
Cells differ in their content of detoxifying enzymes and hence, ability to grow in the presence of oxygen
90
Classification of gram-positive cocci Staphylococci are catalase + Streptococci are catalase -
Staphylococci
Streptococci
91
pH Majority of bacteria grow BEST at neutral or
slightly alkaline pH• pH 7.0 – 7.4 => this is near most normal body
fluids
Acidophiles: grow BEST at low pH (acid: pH 0 – 1.0)
T.B. - pH 6.5-6.8
Alkalophiles: grow BEST at high pH (alkaline: pH 10.0)
V. cholerae - pH 8.4-9.2
Microbial physiology. Microbial metabolism. Enzymes. Nutrition. Bioenergetics. Bacterial growth and multiplication.
Biological catalysts Highly specific Extremely efficient Increase reaction rates 108-1010 times High turnover numbers Proteins or RNA (ribozymes)
Enzymes
Uptake of nutrients by bacteria
Passive diffusionsimple diffusionFacilitated diffusion
Active transport
Enzymes - catalysts that speed up and direct chemical reactions A. Enzymes are substrate specific
Lipases Lipids Sucrases Sucrose Ureases Urea Proteases Proteins DNases DNA
Sucrose Sucrase Lipids Lipase DNA DNase Proteins Protease removes a Hydrogen Dehydrogenase removes a phosphate phosphotase
Naming of Enzymes - most are named by adding “ase” to the substrate
Naming of Enzymes
Grouped based on type of reaction they catalyze
1. Oxidoreductases oxidation & reduction
2. Hydrolases hydrolysis 3. Ligases synthesis
Oxidoreductase
Oxidation reduction in which hydrogen or oxygen are gained or lost
Cytochrome oxidase, lactate dehydrogenase
Transferase Transfer of functional groups, e.g. amino, acetyl or phosphate groups
Acetate kinase, alanine deaminase
Hydrolase Hydrolysis – addition of water
Lipase, sucrase
Lyase Removal of atoms without addition of water
Oxalate decarboxylase, isocitrate lyase
Isomerase Rearrangement of atoms within a molecule
Glucose phosphate isomerase, alanine racemase
Ligase Joining of two molecules Acetyl-CoA synthetase, DNA ligase
Types of enzymes
Enzyme Components
Holoenzyme - whole enzyme
2 Parts
1. Apoenzyme - protein portion
2. Coenzyme (cofactor) - non-protein
Coenzymes
Many are derived from vitamins
1. Niacin NAD (Nicotinamide adenine
dinucleotide) 2. Riboflavin
FAD (Flavin adenine dinucleotide) 3. Pantothenic Acid
CoEnzyme A
Enzyme components
Cofactors may be metal ions Cofactors may accept or donate atoms removed from the
substrate or donated to the substrate Cofactors may act as electron carriers Often derived from vitamins e.g. NAD and NADP – electron carries derived from nicotinic
acid