Wednesday, May 8, 2013

(#@% Me) Biology Exam #2: Tomorrow

What's up when it feels like everything and nothing are both happening...  Yeah.



Seeing as that I received a lower-than-F (um, yeah), here's my study guide for the test that I'll take, surely without any sleep.  Meanwhile, everything else in life is making no sense.  Funny how that works.







Size of Cells
* We want to maximize surface area to volume: a.k.a we want a greater surface area, rather than a larger volume, because for each square micrometer of membrane, only a limited amount of a particular substance can cross per second. 

*Parallel:  If an average-sized person eats the same amount as an over-weight person, neither may lose any weight that day (without exercising).  Either way, the average-sized person is better off -when we're considering what's going inside.

Important sidenote: It's currently 3:33 AM.  Last time I checked the clock, it was 2:22 AM.  Thank you, angels (kow).

*If a cell's volume increases, it's surface area increases, but at a decreased rate.  If you continued to increase the cell's volume, it would soon be unable to efficiently exchange materials (ions, gases, nutrients, wastes) w/their environment, and it would die.  This is why larger organisms don't generally have larger cells than smaller organisms; they simply have more cells.
* A.K.A. As a cell grows, its Surface Area:Volume decreases; at some point in growth, its surface area is too small to supply its raw materials to its greater volume.
*Parallel: The more you eat, the bigger & hungrier you become = the less food you'll have in your kitchen.


ALL CELLS (have this in common)

Cell Membrane:

* regulates what comes in & out of cell, keeps material on either side
* it's fluid, and it's always in movement
Made of 2 Things . . . 
 ~ Phospholipids
- keeps water on either side, thus making the structure
- hydrophilic (likes water) head, hydrophobic (hates water) tail
- they float back & forth
- allows the movement of material
~ Proteins
- allows material in
- connects to material outside
    
Eukaryotic Cells: People, Animals, Plants, Fungi (nice...), Protists
*compartmentalization allows these cells to be larger (by *specialization & *surface area)
* has a nucleus (where DNA is stored)
* organelles (tiny organs that specialize in certain functions -e.g., smooth ER is an organelle)
* linear chromosomes (rather than loops)
* introns (sections of DNA that don't code genes)
* cytoskeleton (gives it structure)

Cytoplasm A.K.A. Cytosol
- Gooey liquid of the cell
- Mostly water, thus dissolves materials and allows for diffusion from one place to another
- Chalk full of enzymes, proteins, ribosomes

Cytoskeleton A.K.A. the Skeleton of the Cell
- Gives structure and shape to the cell
* All three components interact with each other non-covalently.
The cytoskeleton proteins are multifunctional and are also involved in whole-cell movements and movements of substances within the cell.
Three main structural components of the cytoskeleton:
Microtubules (formed be actins) 
* found in all eukaryotic cells
* hollow rods about 25 nm in diameter with 15nm lumen
* structure: wall consists of 13 columns of tubulin molecules
* wall of the tube is constructed from a globular protein called tubulin
* each tubulin protein is a dimer (molecule made of 2 subunits) -each consisting of 2 slightly different polypeptides
* microtubules grow in length by adding tubulin dimers
* functions: maintenance of cell shape (compression-resisting); cell motility (as in cilia or flagella); chromosome movements in cell division; organelle movements
Microfilaments (formed by tubulins): two strands of pearls
* two intertwined strands of actin, each a polymer of actin subunits
* 7nm diameter
Functions: maintenance of cell shape (tension bearing); changes in cell shape; muscle contraction; cytoplasmic streaming; cell motility (pseudopodia/fake foot); cell division
Intermediate filaments
* fibrous proteins supercoiled into thicker cables
* 8-12 nm
* one of several proteins (such as keratins) depending on cell type
* functions: maintanence of cell shape (tension bearing); anchorage of nucleus and certain other organelles; formation of nuclear lamina


Endomembrane System includes:
  • Rough ER
  • Smooth ER
  • Transport Vesicles
  • Golgi Apparatus
  • Lysosomes
  • Microbodies
  • Peroxisomes
Endomembrane System functions in part in:
  • protein synthesis
  • protein modification
  • protein sorting
  • protein transport







Path of proteins through the Endomembrane System:
Proteins are made on ribosomes bound to the RER and move through the endomembrane syystem, transported in vesicles (I'm so sure/wtf is going on here) to the golgi apparatus, to the plasma membrane, and out, yo.

Endoplasmic Reticulum (ER) - folded membrane 
 Rough ER  
 - makes proteins
 Ribosomes (protein synthesis/a.k.a. where proteins are produced) in the cytoplasm
     * Made in the nucleolus 
     *complexes made of ribosomal RNA and protein
     *free ribosomes (suspended in the cytosol)
     *bound ribosomes (attached to the outside of the endoplasmic reticulum or nuclear envelope)
 Smooth ER
 - makes lipids
 - makes steroids
 - metabolism or breaking-down of carbohydrates
 - breaks down toxins inside the cell

Golgi Apparatus (yeah, okay)
* where proteins go (transported in vesicles) to be modified and packaged
* where lysosomes (where material is broken-down) are produced


Lysosomes: a membranous sac of hydrolytic enzymes that an animal uses to digest (hydrolyze) macromolecules
* hydrolytic enzymes and lysosomal membrane are made by rough ER and then transferred to the Golgi apparatus for further processing.
* they also use their hydrolytic enzymes to recycle the cell's own organic material, a process called autophagy
* with the help of lysosomes, the cell continually renews itself
* has enzymes that work in oxygen-poor areas and lower PH



Deals w/Energy:
      Mitochondria
     - breaks down sugars from photosynthesis
     - found in all Eukaryotic Cells 
     - makes ATP
     - same size as bacteria and archaea
    -they're folded to increase surface area
    - some genes found here
     Chloroplasts
    - found in plants
    - some genes found here 
    - always present when there's photosynthesis 

Nucleus
Quick & Simple Video: All About the Nucleus
*contains most of the genes in the eukaryotic cell
*most noticable organelle in a cell (average is 5um in diameter)
Nuclear envelope: double membrane (each a lipid bilayer separated by a space of 20-40 um) enclosing the nucleus; perforated by pores (pore complex lines each pore and regulates the entry and exit of proteins and RNAs in the cell, as well as macromolecules); continuous with ER; separates its contents from cytoplasm
Nuclear lamina (lines the surface of the nuclear envelope): netlike array of protein filaments that maintains the shape of the nucleus by supporting the nuclear envelope; helps organize genetic material so it functions efficiently.
Nuclear matrix: framework of protein fibers; helps organize genetic material so it functions efficiently.
Nucleolus: nonmembranous structure involved in production of ribosomes (ribosomal RNA); a nucleus has one or more nucleoli
Chromatin: material consisting DNA and proteins; visible in a dividing cell as individual condensed chromosomes.
Chromosome: DNA is organized into units called chromosomes.  Each chromosome contains one long DNA molecule associated with many proteins




Prokaryotic Cells: Bacteria & Archaea
* all small (to increase surface area)
* evolved before Eukaryotic Cells
* do not have double membrane
* only one "naked" chromosome (circular molecule)
* Cytoplasm
* Their flagella rotate, unlike ours




Plant Cells:
* Thick Cell Wall
* Chloroplast :
* Mitochondria
* Vacuole
VS.
Animal Cells:
* Mitochondria
*Centrioles





... Just looked at the clock once again, while feeling sad.  4:44 AM




Peroxisome: a specialized metabolic compartment bounded by a single membrane, holds on to enzymes that require oxygen
  • contain (oxidative) enzymes that remove hydrogen atoms from various substrates and transfer them to oxygen (O2), thus producing hydrogen peroxide (H2O2)
  • Take H --> O2 --> H202
  • some peroxisomes use oxygen to break fatty acids down into smaller molecules that are transported to the mitochondria and used as fuel for cellular respiration
  • detoxify alcohol and other harmful compounds by transferring hydrogen from the poisons to oxygen
  • they also contain an enzyme that convert H2O2 to water
  •  play a role in cholesterol synthesis and the digestion of amino acids
  • liver cells most likely have a lot of peroxisome



Random Stuff
*Oxygen needs to get into a cell through diffusion (bc it doesn't have a charge)
*Carbon Dioxide is going to get out of a cell (bc it doesn't have a charge)
*Nucleus, Mitochondria, Chloroplasts = They all have double membranes




Chew on this... (maybe while smoking?)
"Goal of life: increase surface area"

Compartmentalization = parts within the parts  . . . Think nesting dolls -and, while you're at it, remember love is all you need, at the end of the day -not made-up labels like Golgi Apparatus.











  • knock on wood