final exam Flashcards
chLUCA
the Last Universal Common Ancestor
The evolution of protobionts led to an organism(s) that is the precursor to all current life on Earth
We know it stored genetic information in DNA
Roughly 350 genes common among all life forms
We know it used proteins for catalysts
We know it used ATP as a major energy source
“Uncontestable” Microfossils
The oldest fossil evidence of life is from 3.8 byo stromatolites found in Western Australia
The first cells were Prokaryotes - a membrane surrounding cytoplasm containing loose DNA with simple metabolism
The Great Oxygenation Event
Resulted from the evolution of oxygenic photosynthesis by cyanobacteria
Oxygen first saturated the oceans and then accumulated in the atmosphere
O2 levels went from <1% to roughly 21%
It’s the End of the World(As We Know It)
This had a devastating effect on life on Earth!!
The “corrosive” O2 doomed countless anaerobic organisms
Only those organisms that had enzymes to “handle” oxygen could survive and reproduce
As oxygen levels increased slowly over time, the organisms that could remove O2 were selected for
Today we can classify species (mostly Prokaryotes) based on their oxygen requirements
Aerobic (require oxygen), facultative (can survive in presence of oxygen, but don’t require it), Anerobic (die when interacted with oxygen)
It’s the Beginning of the World(As We Know It)
The generation and persistence of oxygen allowed for an unprecedented increase in biological diversity:
The development of aerobic respiration
What better way to get rid of toxic oxygen than to reduce it to water? C6H12O6 + O2 –> CO2 + H2O + ATP
The development of an ozone layer
To protect the planet from mutagenic cosmic rays
Life could creep out of the primordial soup and colonize land…
Life is Predominantly Prokaryotic
99% of life on Earth are unicellular Prokaryotes
Prokaryote: Before the kernel (nucleus)
No membrane-bound organelles
nuclei, mitochondria, chloroplasts, ER
Divided into two groups
Bacteria and Archaea
Have adapted to every environment
Aerobic, anaerobic, acid-tolerant, salt-tolerant, radiation-tolerant
Eukaryotes Emerge
~ 1.8 bya, as Prokaryotes were optimizing photosynthesis and respiration, Eukaryotes appear in the fossil record
This occurred by the processes of Endosymbiotic Theory
Endo: Within. Sym: Together. Biotic: Life
One form of life living within another
Generated a bacteria/archaea hybrid
Endosymbiotic Theory
A small bacterium began living inside a larger archaea
Symbiosis refers to a close association between two organisms, Endo means within
The bacterium was efficient at aerobic respiration
The archaea was efficient at obtaining nutrients
Over time, the association became permanent
Neither can live without the other
The bacteria/archaea hybrid became a eukaryote
The bacterium is now an organelle = mitochondria
Also occurred with a photosynthetic bacterium = chloroplasts
Fireball Earth
With all the collisions, Earth was molten
As the collisions decreased, Earth cooled, and a crust formed
Atmosphere mainly composed of Hydrogen
Oceans formed as water cooled
Volcanoes erupted through crust dispersing simple, inorganic gases into the atmosphere
Primary Abiogenesis
Abiogenesis: Life out of no life
Simple inorganic molecules combined to become organic molecules of increasing complexity. Organisms are made of carbon
As these molecules became more stable and persisted longer in the environment, they initiated increasingly complex associations
Eventually, one gained the ability to self-replicate
Eventually, they became surrounded in a membrane
Led to the first cellular organisms
Spontaneous generation did occur, at the start when the Earth was very different
Anaerobic
no oxygen
Conditions of Early Earth
Anaerobic (no oxygen)
Oceanic
Filled with simple inorganic molecules
Hydrogen, methane, water , carbon dioxide, nitrogen, hydrogen sulfide, ammonia
High temperatures
Average global temperature of roughly 90 degrees
These conditions are almost perfect for spontaneous generation of life. The only other consideration is a source of….
Panspermia
Could life have evolved in outer space?
Murchison Meteor (7 byo) and found that it contained amino acids and nucleic acids
The Primordial Soup
The formation and persistence of simple organic molecules occurred in the Earth’s early oceans = the “primordial soup”
“primitive pizza”
The formation and persistence of simple organic molecules occurred in the Earth’s early oceans = the “primordial soup”
These molecules splashed onto volcanic clay “beaches”, which allowed polymerization into the four common biological macromolecules
Producing a “primitive pizza”
Polymerization:
Poly (many) mer (bodies). The joining of small building blocks into large molecules
Carbon dioxide
“captured” by photosynthesis, glucose is used in metabolism. Goals of metabolism: Energy and structure creation
Animals
require 25 elements
plants
require 17 elements
Cellular structure and metabolism
is based on carbon-containing (organic) molecules
50% of body mass is carbon (excluding water)
Other elements play important roles as well
Oxygen, hydrogen, nitrogen, phosphorus and calcium
Carbohydrates
(Carbon water) – (CH2O)n
Simple sugar - monomer + dimers
Complex sugar - polymers
Monosaccharides–3-7 carbons(Simple sugars)
Glucose, fructose, sucrose (disaccharide), etc.
Form of carbohydrate fed into metabolic pathways
Polysaccharides – 100-1000 monosaccharides
Glycogen, starch, cellulose
Form of carbohydrate used for long-time storage + building cells
Nucleic Acids
(C10H14N5O7P)n – ish!
Monomers – ATP, GTP, etc.
Complex polymers – RNA + DNA
DNA
Polymers of deoxyribonucleic acid nucleotides (monomer) that “fold” into a double helix
Used to store genetic information
RNA
Polymers of ribonucleic acid nucleotides that “fold” into complex three-dimensional shapes
Used to turn genetic information into proteins
Used as energy molecules (ATP, GTP)
DNA
Polymers of deoxyribonucleic acid nucleotides (monomer) that “fold” into a double helix
Used to store genetic information
RNA
Polymers of ribonucleic acid nucleotides that “fold” into complex three-dimensional shapes
Used to turn genetic information into proteins
Used as energy molecules (ATP, GTP)
RNA has an extra oxygen over DNA
Nucleoside
Monomer
Nucleotide
Polymerized
Lipids
(C39H75O10P)n – ish!
triglycerides + phospholipids
Water insoluble molecules composed mostly of carbon and hydrogen atoms (hydrocarbons)
The two major biological lipids are triglycerides + phospholipids
Saturated fats
do NOT have fatty acids that contain double bonds
completely saturated with hydrogen. CH3 - CH2 - CH3
Unsaturated fats
have fatty acids with one or more double bonds CH2 = CH - CH3
fatty acids
Fatty acid molecules can vary in the:
Number of carbon atoms in the hydrocarbon chain
Presence of double bonds between carbon atoms
Triglycerides
Fats mainly serve as energy-rich storage molecules
Consist of 3 fatty acid (hydrocarbon) chains bound to a glycerol “anchor”
The C-C and C-H bonds store lots of energy, that can be released when needed
Phospholipids
Glycerol
2 fatty acid “tails”
1 phosphate “head”
Attached to an organic molecule
Phospholipid Bilayers
In aqueous solutions, phospholipids form bilayers
Man-made bilayer vesicles are called liposomes
Biological Membranes
Compartmentalize the cell
The plasma (cell) membrane separates “out” from “in”
Internal membranes create additional cellular regions
Membranes are selectively permeable membranes, meaning not everything can pass through
Membranes are important for cell-cell communication. Site of biological reaction
The Lipid Bilayer is Fluid
Most phospholipid molecules are independent
Not bound to anything
Each is free to move along the plane of the membrane
Not all membranes have the same degree of fluidity…
Type of phospholipid affects the fluidity
Mixed with the phospholipids are proteins and sugars
The Lipid Bilayer is a Barrier
Large and/or charged molecules have a hard time squeezing between the phospholipids
EX. Glucose, sucrose, Cl-
Small and/or uncharged molecules can cross the membrane
EX. Water, glycerol
Fluid mosaic model
Diffusion and Osmosis
The tendency of dissolved molecules to evenly distribute themselves in a solution
Molecules move from areas of high concentration to areas of low concentration
Diffusion works across membranes, IF the molecule can cross the membrane
If not, water will move to dilute the concentrated side
Transport of Molecules
Most biologically important molecules are large and/or charged
Cannot diffuse across the membrane without help…
Cells have transport proteins, shaped like tunnels, that allow these molecules to cross the membrane
Proteins
NH3CHRCOOH)n
Short polymers – used as a food source
Complex polymers – polypeptides
Polymers of amino acids that “fold” into complex three-dimensional shapes
Oligopeptides (4-10 amino acids)
Used for Food
Used in cell-to-cell communication
Polypeptides (100s of amino acids, sometimes 1000’s)
Multiple uses determined by the overall 3D shape of the molecule
Amino Acids
Central (a) carbon
Amino group
Carboxyl group
R group
This is the part of the molecule that varies
There are “20” unique amino acids
Amino acids are linked together into peptides
Common Cellular Features
Cell membranes
Phospholipid bilayers that compartmentalize stuff
Cytosol
the fluid that fills a cell
The central dogma
DNA –> RNA –> Protein
Nucleus
Separates genetic information from rest of cell
Mitochondria/Chloroplasts
organic molecules synthesis
energy generation (ATP)
Endomembrane system
Lipid/protein synthesis – Endoplasmic Reticulum
Trafficking and excretion - Golgi Apparatus
Digestion and detoxification - Lysosomes
Storage - Vacuoles
Cytoskeleton
Internal and external structural support
Cell wall
External cell structural support
Plants and algae use cellulose, pectin, chitin
Centrosome
cell replication
Flagella/cilia
cell movment
Nucleoid
Area in the cytosol where genetic info is stored
Bacterial Cell Walls: Peptidoglycan
The carbohydrates NAG and NAM are bound to one another in an alternating sequence
Form long glycan (sugar) chains
NAM has a protein side chain that links adjacent glycan chains together
Forms a cellular lattice that surrounds the cell
Bacterial Cell Walls: Gram Reaction
Bacteria can be grouped into two main classes based on the thickness of their cell walls
Gram-positive bacteria have thick cell walls
Stain purple in a Gram reaction
Gram-negative bacteria have thin cell walls
Stain red in a Gram reaction
Lysozyme
Produced by multiple animal species including Homo sapiens…
Found in secretions like tears and saliva
Breaks the bonds between NAG and NAM in peptidoglycan
Without a cell wall, the cell lose structural support and will die
Penicillin
Produced by the soil fungus Penicillium chrysogenum
Binds to the enzyme that forms the protein cross-link between glycan chains
Without the cross link, the cells will die
Penicillin does not harm us because we do not have peptidoglycan
The Outer Membrane
Only found in Gram-negative bacteria
Similar structure to other biological membranes
Permeable compared to the plasma membrane
Lipopolysaccharides (LPS) make up ~40% of the external leaflet