Monday 20 August 2012

Transport across cells, 2/8/2012

2 Types of transport:
~Osmosis
~Diffusion

Some basic definitions:

Concentration--The amount(mass) of substance (solute)/volume of fluid
so High concentration means more of the substance while LOW concentration means less of the substance is inside.

Diffusion

Diffusion is the net movement of particles from a region of higher concentration to a region of lower concentration.

It is a spontaneous (no external force/energy needed) process.

Factors affecting it are...
1) Temperature
2) Size of molecule/atom

Substances tend to spread from an area where they are more concentrated to an area where they are less concentrated.

Two or more substances can become evenly distributed (reach equilibrium) EVEN without external interventions.

Change in concentration between 2 regions is known as the concentration gradient.

Change in concentration is known as the concentration gradient.

The more the concentration, the lesser the distance. The particles diffuse downwards.

Particles diffuse down the concentration gradient.

The larger the concentration gradient, the faster the rate of diffusion.

Applications of diffusion in Biology:

for unicellular organisms, diffusion is used to obtain nutrients and remove waste via a membrane.

Chemical substances must be able to move from one place to another in order to keep the living organisms alive and growing.

E.G. Food substances that were absorbed need to
~Move from one cell to another.
~Move in and out of the cell.
~Move from 1 part of the cell to another.

2 Types of membranes:

Permeable: allows ALL substances to pass through.
Partially permeable: allow SOME substances to pass through only.

Conclusion:

Diffusion is an important process where substances are moved without use of energy.
It is the net movement of particles (or molecules or ions) from a region of higher concentration to a region of lower concentration.
Thus the movement is down a concentration gradient.

It is important to bear in mind that the movement is random and the greater the concentration gradient, the faster the rate of diffusion.

Osmosis

Osmosis is the net movement of water molecules down the concentration gradient through a partially permeable membrane.

Water/The solvent moves freely through pores in the partially permeable membrane
The solute is too large to pass through.

Diffusion vs. Osmosis

Diffusion:                                                                                                                               
The movement of particles in general.                                           
Can occur both in the presence and
absence of a membrane.

                                                                                                        
 Osmosis:  
Movement of water molecules only.
Water molecules move across a partially 
permeable membrane.

Water potential (ψ phi)
Water potential (ψ) is a measure of the tendency
of water molecules to move from one area to
another.

Thus we can redefine Osmosis as:

The net movement of water through a selectively permeable membrane from a region of high water potential (dilute or hypotonic) to a region of low water potential (hypertonic).

Hypotonic--Dilute solution compared to surrounding
Hypertonic--Concentrated solution compared to surrounding
Isotonic--Same concentration as surrounding

In cells

When placed in a hypertonic solution, water from the cell enters the solution through osmosis and becomes plasmolysed (plant) [Means it shrinks]

When placed in a hypotonic solution water enters the animal cell through osmosis and under goes cytolysis (bursts).


Plant cell

Plant cells are structurally more complex.
They are surrounded by a cellulose cell wall
which is…
– Freely permeable to water--Permeable
– Not elastic
– Able to resist cell expansion

When placed in a hypertonic solution, water from the cell enters the solution through osmosis and becomes plasmolysed (plant) [Means it shrinks] Water leaves the cytoplasm and vacuole by osmosis. The cytoplasm and vacuole shrinks, pulling the cell membrane away from the cell wall. The cell is now plasmolysed or in a state of plasmolysis. The tissue becomes flaccid.


When placed in a hypotonic solution water enters the vacuole by osmosis. The vacuole swellspushing the cytoplasm against the cell wall. The inelastic cell wall resists expansion and the becomes rigid, or turgid. It can be described as a state of turgor. 
Young plants, which have little woody tissue, rely on turgor for support against wind and gravity. 

Note that when the cell membrane is separated slightly, then it is flaccid. If it is severely separated, then it is plasmolysed.

No longer fully filled with water, the tissue loses support and becomes flaccid.
A non-woody plant which loses lots of water has many plasmolysed cells and as a result the plant wilts.

Plasmolysis vs. Crenation

Plasmolysis is only used for plant cells (the shrinking of plant cell cytoplasm) and cell membrane moves away from cell wall

Crenation is only used for animal cell

Isotonic solution

An isotonic solution has the same concentration of solutes as the cytoplasm.

-> No net movement of water molecules into or out of the cell (animal/plant cell)

Therefore, cells neither shrink nor expand when placed in isotonic solution.



Summary of the processes that occur due to osmosis

Crenation--when animal cells are placed in hypertonic solution and thus losing water to surroundings
Cytolysis--when animal cells are placed in hypotonic solution and thus bursting as gains water from surroundings
Plasmolysis--When plant cells are placed in a hypertonic solution and lose water, thus becoming flaccid 
Turgor--When plant cells are place in a hypotonic solution and gain water from surroundings, and the cellulose cell wall prevents cell from bursting by exerting an outward force
























Wednesday 1 August 2012

Ecology, 30/7/2012-2/8/2012

Some definitions:

Habitat: Place where organisms live, it must supply the needs of organisms.
Population: Group of living organisms in the same species.
Community: when all populations live together in a habitat and interact.
Niche: Role that each species plays in a community. Note that each species has a different role from another.
Ecosystem: Community+Abiotic factors interact.
Biome: Habitats with similar climate and plants.

There are 3 life supporting zones, namely the Lithosphere (crust of the Earth), Atmosphere (Gas) and Hydrosphere (Water). When they come together, they are known as...Biosphere.

These 3 components and non-living components are known as abiotic factors. 

Abiotic factors and Biotic (living factors) are needed for LIFE.

Abiotic Factors:

~Temperature: affects physiological activities of organisms

~Water: essential for life and organisms may have specially adapted features for survival in places with little water

~Light: Affects many organisms, not just plants.

~Oxygen: needed for all organisms for respiration.

~Salinity: amount of salt. Affects marine/aquatic organisms.

~pH level: level of acidity.

Biotic factors: the food, other organisms relationships.

1)Symbiosis: 

~Mutualism: Both organisms benefit from each other.
~Commensalism: 1 Organisms benefits, the other gains or loses nothing.
~Parasitism: 1 organism (host) is disadvantaged, other organism (parasite) benefits.

2) Competition for food and resources. Interspecific (other species) and Intraspecific (same species) competition

3) Predation

One population feeds on the other. The interaction between both organisms is necessary for the survival of the predator.


Predator-prey graph


Here's a typical food chain:

Producers->Primary Consumers->Secondary Consumers->Tertiary Consumers->Quaternary Consumers

Some more definitions: Detritivores

Decomposers--Recycle organic matter back to inorganic nutrients in ecosystems e.g. Fungi and Bacteria.

Detritus feeders--gain nutrients from dead animals and plants or animal waste products e.g. Termites, some bacteria, Beetles, Earthworms

Some pyramids that are used to obtain information:

Pyramids of numbers:

Number of the organisms top is the consumers and bottom is producers

Pyramids of dry mass:

Mass of organisms WITHOUT water.

Pyramids of energy:

Total energy used by organisms in a year.

Measured in: energy flow in kJ/m2/year


Sunday 29 July 2012

Specialised Cells, Evolution, 23/7/2012

4 types of specialised cells:

~RBC (Red Blood Cells)
~Xylem vessel (xylem cell)
~Root Cell
~Intestinal cell

Red Blood Cells

Structure:
~It is biconcave shaped
~No nucleus so gotten rid off by the liver
~can change shape (flexible) 
~Has haemoglobin

Function:

~The biconcave shape increases the surface are to volume ratio so more oxygen can be diffused as more Red Blood Cells can be compacted into a certain amount of space.
~Haemoglobin allows transportation of oxygen and not having a nucleus allows more haemoglobin to be inside the cells so more oxygen can be transported.

How does the biconcave shape help in increasing S.A. to volume ratio?

Red blood cell--LARGER surface area compared to other cell that has same volume.









Xylem Vessel

~Three types of cells: Xylem parenchyma cells and fiber cells and tracheary elements.
~The first 2 cells provide structural support for TE.
~TE are dead when they mature and act like pipes to allow water and dissolved minerals to flow through them.
~The support is provided by secondary cell wall thickenings, which form in distinctive patterns mostly rings to provide maximum structural support. the cells are arranged end to end.

They are made of lignified cell walls and the secondary cell walls are made of lignin which is a type of hard glue.

The xylem vessel is used for 2 functions:

~Transport system (transports minerals and water)
~Support

Root Cell

~has a long and narrow protruding end which increases the surface area to volume ratio, enabling the root hair cells to absorb more water and mineral salts from the soil.

Intestinal cell

Epithelial cells in the small intestine are a type of brush border cell (covered in microvilli). These cells are covered in microvilli to increase the surface area to volume ratio thus making them more efficient.


Uses:
  • Ion uptake
  • Water uptake
  • Sugar uptake
  • Peptide and amino acid uptake
  • Lipid uptake
  • Vitamin B12 uptake
  • Reabsorption of unconjugated bile salts.
  • Secretion of immunoglobulins

Most of this information was from our class google docs on specialized cells.

Saturday 21 July 2012

Lab Report for Scientific Investigation practical (mealworm experiment)


1.   What do you want to find out? (Aim/Purpose/Research question)
The aim of the experiment is to find out whether mealworms would choose to live in dark or bright conditions.

2.   What is the tentative explanation of your research question? (Hypothesis)
The mealworms will mostly remain in the dark.

3.   In an investigation, there is only one variable to be changed. Which variable will you change in this investigation? (Independent Variable)
The independent variable is the presence of light.

4.     All the other variables must be kept constant. List a few important variables that will affect the results greatly. (Controlled Variables)
The controlled variables are the number of mealworms on each side (bright and dark) initially, the amount and type of food on both sides.



5.     What results will you measure? (Dependent Variable)
The dependent variable is the number of mealworms on each side at the end of the experiment.

6.     State the assumptions that you have made
The assumptions are the dark side has no exposure to light, the bright side has no dark patches, there is an equal amount of food on both sides and all 4 mealworms are similar. If there are more mealworms on a particular side, the mealworms prefer that particular side.


7.     List the materials and apparatus that you will need to carry out the investigation.
(Materials and Apparatus)
Materials and Apparatus:
C  4 mealworms
C  A plastic container
C  Some food for the mealworms
C  Strong light
C  Some cloth
C  A shelf with ample space to keep the container underneath

C  _______________________
C  _______________________
C  _______________________
C  _______________________
C  _______________________



8.     List the steps that you will take to carry out the investigation. (Procedure) Include drawing of setup.
Procedure:
Step 1: Place the food in the container evenly.
Step 2: Place half the box under strong light and place the cloth over the remaining half. To ensure that no light enters the dark portion, shift the dark half under the shelf.
Step 3: Place 2 mealworms onto each side of the container.
Step 4: Observe their movements in a daily interval basis over 3 days.



9.     Data collection and organization. (Results)
The data can be presented in the form of tables and/or graphs.
Results: After 3 days, 3 of the 4 mealworms were in the dark section of the box. They have moved towards the light but then avoided it later.




10.   Explain what your data means. (Data Analysis)
What did you observe and give reasons to your observations.
Data Analysis: This means that the mealworms prefer dark conditions as there are more mealworms on the dark side and if there are more mealworms on a particular side, then they prefer that living condition




11.   What can you deduce from the discussion of your data analysis? (Conclusion)
State if your data support your hypothesis? If not, what would you do? In other words, how can you further improve your design? What do you think have been carried out incorrectly and affected the data collected?
Conclusion: My hypothesis has been proven right and Mealworms prefer dark to bright conditions.


Drawing of a mealworm:

                                                                   

 Characteristics of the mealworm:

Number of segments: 12
Length of mealworm: 3.5cm
Colour: Brown
Other distinguishable characteristics: Head and end of body is darker in colour. It has 6 legs, 2 antennae and distinct divisions that show its segmented body.


~End of lab report~


















Classification, Evolution, 16/7/2012

Why do we need to classify organisms?


~Easier to compare similarities and differences between organisms
~Find certain organisms using their characteristics
~Accurately and uniformly name organisms
~Prevent misnomers (that is, misleading names) such as starfish and seahorse that are not really fishes or horses
~Use standard language (Greek/Latin) for all names


What is classification?


Simply said it is the arrangement of  organisms into standard groups based on similarities
It is also known as Taxonomy


Some facts on biodiversity:


There are 13 bil. known species of organisms which is 5% of all organisms ever lived. This number is growing as new organisms are still being found and identified!




Binomial Nomenclature--The current system of classifying invented by Carolus Linnaeus.

Scientific name of all organisms: Genus(start with caps) species(small letters)

Italicized in print, underlined in writing

e.g. American robin's scientific name--

(in print): Turdus Migratorius
(in writing): Turgus Migratorius

Taxon (pl. taxa) is a category into which related organisms are placed.

Hierarchy of groups (taxa) from broadest to most specific

Domain, Kingdom, Phylum, Class, Order, Family, Genus, Species

3 Domains, broadest, most inclusive taxon:

Archaea and Eubacteria--Unicellular prokaryotes (no nucleus or membrane-bound organelles), Eukarya--more complex and hae a nucleus and membrane-bound organelles


Most genera contain a number of similar species, with the exception of Homo, which contains only modern day humans

Each successive classification category or taxon contains more different types of organisms than the preceding category

Classifying Humans...

Domain Eukarya --Cells with nuclei
Kingdom Animalia --Multicellular
Phylum Chordata  --vertebrates
Class Mammalia --Hair, mammary glands
Order Primates --Adapted to climb trees
Family Hominidae --Adapted to walk erect
Genus Homo -- Large brain to use
Species Homo sapiens --characteristics of modern day man.


This is just an example. There many other ways to classify organisms even though they have the same scientific name.










Wednesday 18 July 2012

Cell structure and function, 17/7/2012

Learning Outcomes:


~Cell is the main unit of life
~Identifying and stating function of main organelles in cell like nucleus, nuclear membrane, chromatin, endoplasmic reticulum, cytoplasm, etc.
~Identify main organelles in diagrams
~Compare and contrast plant and animal cells
~explain how specialised cell structure is related to function


Cells
found in ALL living things  and they come from pre-existing cells via cell division.


A cell is 3D and it can be cut longitudinally and laterally.


Definition:  A cell is the smallest unit that is capable of performing life functions.


Some examples:
~Amoeba proteus
~Bacteria
~Nerve cell
A prokaryotic cell
from http://library.thinkquest.org/C004535/media/prokaryote.gif 
~Red Blood Cell


2 types of cells


Prokaryotic
~ Eukaryotic


Prokaryotic
~Do not have organelles surrounded by membrane
~Few internal structures
~unicellular organisms belong in this category


Eukaryotic
~Contain organelles surrounded by membranes
~Most living organisms (multi-cellular) such as animal, plant, fungi belong in this category.




Parts of a cell


Cell wall
~Most commonly found in plant and bacteria cells (not in animal cells)
~Surrounds the cell membrane
~Rigid structure that maintains the shape, support and protects cells
~Permeable to small molecules and proteins only
~FULLY PERMEABLE


Cell membranes


~Selectively/Partially permeable membrane of cell that controls movement of substances in and out of cell


*Cell membrane is a phospolipid bilayer. This layer is made up by Hydrophilic 


Nucleus
~Contains chromatin that controls cell activity
~Chromatin contains DNA (Deoxyribonucleic acid) which is genetic material
~DNA contain instructions for traits & characteristics and to carry out the cell's function
~Separated from cytoplasm by nuclear membrane


Cytoplasm


~Gel-like mixture
~surrounded by cell membrane
~contains organelles


Mitochondria
~"Powerhouse" of the cell
~Food that is eaten is transformed into energy (ATP--Adenosine5'-triphosphate) for cell and bodies.


(*ATP transports chemical energy in cells for metabolism)


Endoplasmic reticulum
~Interconnected network network of tubes of tubes and vesicles
~Synthesis (i.e. ) of proteins, fats, steroids
~Transports materials around cell
~Membrane bound organelle


2 Types
Smooth type (no ribosomes)
Rough type (ribosomes embedded in surface)


Ribosomes
~Small structures that are found in thousands in the cell (either floating throughout the cell or on rough endoplasmic reticulum)
~Make proteins (with the aid of mRNA)


Messenger sends proteins from nucleus via nuclear pores despite endoplasmic reticulum connection with nucleus 


mRNA- Messenger RNA is made from DNA in chromatin which is sent to the ribosomes to be translated into proteins (comes from amino acids)


Golgi Apparatus& Bodies


Note: Apparatus and bodies can be used interchangeably. Apparatus is used when cut longitudinally and bodies used when cut laterally.


~Works with the Endoplasmic Reticulum
~Main aim is to process and package molecules such as proteins and fats made by cell
~Brings these products to the surface of the cell where they can be secreted
~Other secretions include hormones, antibodies and enzymes


Lysosome


It aids in digestion and defense in/for cell
~Contain digestive enzymes
~Digest excess or worn out organelles, food particles, or engulf bacteria or viruses
~Helps repair worn-out plasma membrane
*It repairs worn-out membranes by fusing with the membrane.
~They also provide sugars, amino acids and bases which are the foundation of macromolecules
~Cell breaks down if lysosome explodes. 
*This is called necrosis, which occurs when one gets injuries.
*apoptosis is the more subtle version of necrosis, where it takes place in normal circumstances


Vacuoles


~Membrane-bound sacs for storage, digestion and waste removal
~Central large vacuoles help plant cells maintain shape
~In animal cells, vacuoles are small and numerous in number
~ Food vacuoles are formed by phagocytosis
*Phagocytosis on how the food vacuoles are formed:
When a food particle enters a cell, an organelle called the cytostome extends it "2 arms" around the particle like a membrane, thus forming a food vacuole.


Chloroplast
~Usually found in plant cells
~Contains green chlorophyll
~where photosynthesis takes place
~Converts light energy to chemical energy in glucose 


The differences between Plant cells and Animal cells




Plant Cell                                            VS.                                   Animal Cell

~A central large vacuole                                                                        ~Multiple vacuoles that are small
~Contains Chloroplasts                                                                          ~ No chloroplasts present
~ Cellulose cell wall present                                                                  ~ No cellulose cell wall present
~Regular shape                                                                                      ~ Does not have a regular shape




*In plant cells, since it mostly consists of fluids, the chloroplasts will move toward the sunlight at ALL times in what is called cytoplasmic streaming.











Thursday 12 July 2012

Harvard VPA, HBL, 13/7

Some screenshots taken during Harvard VPA:




This was the 2nd assessment on the Silence of The Bees. A screenshot was not taken during the 1st assessment: There's a new frog in Town.