Area study 1

Sizes of cells:

  • Sizes of cells vary and they require different tools in order to clearly see their structure. Some examples; human egg 0.1mm, amoeba 0.25mm to 0.75mm, bacteria 0.0002mm.
  • Some rules about measurements; 1000 micrometres in 1 millimetre, 10000 micrometres in 1 cm
  • if the field of view is 0.5mm in diameter we can estimate the size of a cell we are viewing by estimating the number of times the cell would fit across the diameter of this field of view. Eg. if we estimated the cell fits across the field of view 5 times then the size of this cell is 0.1mm (Field of view / number of times it fits across the diameter.) ie 0.5/5
  • Types of cells- you will need to be able to list the characteristics of plant cells vs animal cells as well as Prokaryotic cells vs Eucaryotic cells
  • Animal cells can have a variety of shapes and these shapes support the roles the cells play in a body. eg muscle cells -very long, epidermal skin cells -blocky
  • Shapes and function
  • an extra site for detailed info. http://www.abpischools.org.uk/page/modules/homeostasis_kidneys/index.cfm?coSiteNavigation_allTopic=1

Sizes

Surface area to volume ratio, SA:V
something very small - will have a high SA:V eg 6:1 ratio this means there is lots of places for diffusion and osmosis to occur. ie ways for substance to enter into and out of the cell.
Something with a low SA:V ratio eg 3:2 will have so much material in the volume of the cell that it would take too long for nutirents to reach it

Structures inside cells
Rough Endo plasmic reticulum
Ribosomes on the surfaceof the ER make it rough - Ribosomes are the site of protein synthesis, Rough ER stores proteins, packages proteins
Smooth Endo plasmic reticulum
makes and stores lipids and steroid
nucleus
Controls the functions of the cell. It is unique to eukaryotes and is enclosed by a double membrane - called the nuclear envelope. This membrane is perforated with nuclear pore complexes. (protein lined channels) that control teh exchange of materials between the nucleus and cytoplasm.
DNA is found in the nucleus - forming chromatids during cell division, also inside the nucleus is large inclusions of RNA (nucleoli)
golgi appartus or golgi complex
It produces the membranes that surround the lysosomes. The Golgi body packages proteins and carbohydrates into membrane-bound vesicles for "export" from the cells. Secrete
vacuole
storage
ribosomes
protein synthesis
mitochondria
site of respiration
cytosol
liquid in the cytoplasm
cytoplasm
liquid and organelles except the nucleus
lysosome
lysosome - (also called cell vesicles) round organelles surrounded by a membrane and containing digestive enzymes, sometimes called suicide sacs as the enzymes inside can destroy the cell
Cytoskeleton
A 3D network of fine protein and microtubules within the cell that holds the organelles in place
Cell wall
in plants , fungi, algae and bacteria and some other prokaryotes. Made of cellulose, provides structure. ( in some plants (woody plants) there is a primary and secondary cell wall - the primary cell wall is as described the secondary is made of lignin that continues to thicken until the cell dies - this is wood.

What is the function of a pinocytotic vesicle? | Reference.com
https://www.reference.com › Science › Biology › Cells
A pinocytotic vesicle is a structure that aids in transportation as a cell's plasma membrane absorbs molecules from outside. Dictionary.com describes this process as taking place when the exterior membrane enfolds the molecule prior to transport into the cell's cytoplasm.

A raphide crystal occurs in plant cells, and its main function is to repel animals away from plants. The crystals are shaped like needles, and are formed from calcium oxalate.

What is the function of a raphide crystal? | Reference.com

https://www.reference.com/.../function-raphide-crystal-ab29c7bb86649dd1

A druse is a group of crystals of calcium oxalate, silicates, or carbonates present in plants, and are thought to be a defense against herbivory due to their toxicity. Calcium oxalate (Ca(COO)2, CaOx) crystals are found in algae, angiosperms and gymnosperms in a total of more than 215 families.

Druse (botany) - Wikipedia

https://en.wikipedia.org/wiki/Druse_(botany)

Microtubules are conveyer belts inside the cells. They move vesicles, granules, organelles like mitochondria, and chromosomes via special attachment proteins. They also serve a cytoskeletalrole. Structurally, they are linear polymers of tubulin which is a globular protein.Oct 11, 2014
Microtubules | Celebrate Cytochemistry | Gwen V. Childs, Ph.D.
cytochemistry.net/cell-biology/microtub.htm
Diagram with definitions
Rough Endo plasmic reticulum -

Transport of substances into and out of a cell is governed by the cell Membranes
All cells have an active boundary called the plasma membrane - the cell membrane. Its role is to keep things in - intracellular and extracellular outside of the cell.

This membrane can be selectively permeable or semipermeable. It selectively controls the the movement of compounds into or out of the cell via diffusion. NB Fungi , bacteria and plants have a stiff structure outside of the cell membrane. This structure provides shape and does not control entrance into and out of the cell. Only the cell membrane does this.
Review the prac on osmosis and diffusion.

definitions Diffusion - movement from hi to lo concentration. eg elements, molecules of compounds can move across the diffusion gradient if their is less of one type of molecule (eg glucose) on one side of the membrane than the other, the same can occur with cations, eg Potassium ions
Osmosis ( a special case of diffusion; the movement of water form an are of hi conc of water to an area of lo conc of water through a semipermeable membrane. NB semi permeable membrane
tonicity- measure of concentration of the solutes in the solution
osmolality- measure of osmotic pressure
turgidity- Description of the "swollen " state of a cell
hypotonic - Low concentration
hypertonic - High concentration
isotonic - same concentration



Structure of the cell membrane

the size of the cell membrane is 8 nanometres ( 1000 nanometres = 1 micrometre , 1000 micrometres = 1 millimetre, therefore 1000000 nanometres in 1 mm)
The cell membrane is made of 2 main substances
1. phospholipids - Phosphate ends are hydrophyllic and are arranged to ward the exterior of the cell and another sett towards the interior of the cell. A hydrophyllic substance is water loving and and is attracted to wards water due to its slight polar charge The hydrophobic ends of hte molecules are pointed toward the centre of the membrane. Water and lipids (fats and oils) do not mix.

proteins- there are 2 types -integral proteins - these are embeded in the phospholipid bilayer (referring to the 2 phospholipids and hydrophylic ends) and generally span the entire width of the cell membrane - hence their name trans - membrane ( trans means across)
Peripheral proteins are either anchored to the inside or outside of the membrane. They can only be removed by harsh treatment eg harsh detergents - these are also hydrophobic and hydrophyllic substances. An example is glycoproteins ( proteins with a sugar /carbohydrate molecule attached.)

Fluid mosaic model

of the plasma membrane fluids (thick oily substance) with proteins embedded. The membranes major roll is as gatekeeper controlling entry and exit of materials into and out of the cell. The fatty acidcahins within the membrane make the membrane flexible.

the structure of the membrane of the cell and the organelles.

This model proposes that the plasma membrane should be considered as a 2 dimensional structure
the fluids (thick oily substance) with proteins embedded.
the mosaic in the name refers to the appearance of the membrane when viewed from above because of the embedded protein.

The function of the plasma membrane

1. it is an active and selective boundary - this icludes the cell membrane as well as membranes that surround various organelles This means teh organelles can have different conditons more favourable to their role, than the surrounding cytosol.
2. denotes the cells identity - this is conferred by the glycoproteins and are cell surface markers or antigens. Glycolipids on the plasma membrane play the roll of tissue recognition.
3. receives external signals eg in the form of hormones
4. transports materials - acts as a selectively permeable membrane, Transport proteins in the plasma membrane enable the movement of substances that cannot cross the lipid bilayer of the membrane.
Here is an animation of how the cell membrane functions.
this shows the structure of the cell membrane

How do things cross the plasma membrane?

Generally nutrients entering the cell are already dissolved. A number of conditions have to be met in order to be dissolved in water. The main condition is that it should be polar (ie have a slight positive charge on one end of the molecule and a negative charge on the other end.

So the conditions that have to be met are
1 molecular size - smaller molecules cross more easily than large ones. Macromolecules (proteins and DNA) could not cross the plasma membrane
2. NO Presence of a net charge (+ or -) --Gases such as CO2 and O2 and a small uncharged polar molecules like ethanol can cross the membrane but mineral ions like K+, Na+ and CL- can not because they are repelled by the hydrophobic lipid part of the plasma membrane.
3. Solubility of lipid solvents -- Lipophilic molecules can easily cross but hydrophilic molecules like glucose can not cross because they are repelled by the hydrophobic part of the layer of the membrane (remember hydrophillic substance will dissolve in water) Examples of small lipohilic molecules that can dissolve into the lipid bilayer. egs steroid hormones, alcohol, lipohpilic drugs
4. The direction of the concentration gradient -- Movement down the gradient (from hi down to lo conc) does not require energy input so can happen easily. Movement against this gradient cannot occur by diffusion ( when it does happen it is called active transport because energy is actively required )

go here to compare the types of transport

http://www.diffen.com/difference/Active_Transport_vs_Passive_Transport

Simple Diffusion

Movement hi concentration to low concentration

Osmosis

a special case of diffusion
the movement of water form an area of high concentration to an area of low concentration of water through a semipermeable membrane.

Examples of osmosis

Plasmolysis

This is the process of the cell membrane pulling away from the cell wall due to a change in osmotic pressure.
Eg. Elodea is irrigated with salt solution.
This same dehydrating effect occurs in animal cells, or protozoans etc

Using osmosis to preserve food

salted meat - preserves the meat because the environment is now not suitable microbes. The salt also draws the water out of any living microbes. Water flows down the concentration gradient.

The crying albatross

These birds can only drink seawater so how do they survive? Seawater is hypertonic to the extracellular fluid of the albatross. The salt passes from their blood into salt secreting glands - the cells in these glands take up salt from the birds body fluids and hence is even saltier than seawater. This fluid is then passed out of the birds nostril

Dehydration in people

Prolonged diarrhoea leads dehydration as large quantities of water and salts pass into the large intestine and expelled as a water solution.
To rehydrate the patient is given replacement fluid made of saline and glucose. (oral or intravenous)
How it works - glucose stimulates the absorption of sodium by the gut cells. The uptake of sodium and glucose creates a hypertonic internal enviroment and this inturn promote osmosis ( water uptake) .

Facilitated diffusion

Channel proteins and carrier proteins within the plasma membrane help the transfer of materials into the cell.
  • Channel proteins are transmembrane protein molecules that have a water filled pore through which the dissolved substance (Na+, K+ and small polar molecules) pass along the concentration gradient. This means these structure create a hydrophilic passage that bypasses the phosphlipid bilayer.
  • Carrier proteins are specific for one type of molecule. After binding to its specific cargo molecule the carrier protein undergoes a change in shape as it delivers its cargo to the other side of the plasma membrane.


facillitated diffusion - channel proteins.jpeg

carrier proteins.jpeg


active transport.jpeg


Endocytosis

Here is an animation describing how a substance is taken into a cell and the biochemistry of how this process occurs

Diffusion, Facilitated Diffusion, Osmosis, and Active Transport
The student will be able to compare and contrast the following: diffusion, facilitated diffusion, osmosis, and active transport.


|||||||||| How molecules move through the membrane.
||
Diffusionis the movement of molecules from an area where the molecule is in high concentration to an area where the molecule is in lower concentration. A diffusion animation is introduced here. In the animation, the molecules chosen represent a generic molecule (green balls) and carbon dioxide gas (small black and brown three ball structure). The generic molecules being in higher concentration outside of cells will freely diffuse into the cell and carbon dioxide being produced inside the cell due to cellular respiration will increase in concentration inside the cell and diffuse to the outside through the membrane. This allows the cell to obtain nutrients and dispose of carbon dioxide without any energy use. A very fortunate situation for the cell.
Facilitated diffusion is the movement of a molecule from an area of high concentration to an area of lower concentration with the help of a protein channel or carrier. The generic molecules in the previous animation used a channel protein to enter the cell. In the facilitated diffusion animation both amino acids and glucose are shown entering the cell facilitated by a protein carrier. In a cell membrane there would be proteins specific to each molecule and the carriers would not be shared in this way. The animation shows that movement occurs until the concentration of the molecules reaches equilibrium.
Osmosis is the diffusion of water through a semi-permeable membrane. Water moves from an area of high water molecule concentration (and lower solute concentration) to an area of lower water molecule concentration (and higher solute concentration). The osmosis animation shows water moving into a cell through a channel. Water molecules can be transported in this way, but can also diffuse directly through the membrane lipid bilayer.
Active transport is the movement of molecules from areas of low concentration to areas where the molecule is found in higher concentration. This movement is not spontaneous and requires ATP energy and a protein carrier. The ATP is used to drive conformational changes in the protein to pump molecules against their concentration gradient. This process occurs continuously in nerve cell membranes with sodium-potassium pumps. The active transport animation shows a simplified version of how such a pump operates.
Comparison of the ways molecules move into and out of cells.
Name
Type of Transport
Direction of Movement
Conditions
Examples
Diffusion
passive
towards lower concentration
Concentration gradient
Water, gases (02and CO2), and steroid hormones.
Facilitated Diffusion
passive
towards lower concentration
Concentration gradient, plus channel or carrier proteins
Water, glucose, and amino acids.
Osmosis
passive
towards lower concentration
Concentration gradient, channel proteins optional
Water 0nly.
Active Transport
active
towards higher concentration
Carrier protein and ATP energy
Ions, sugars, and amino acids.






the structure of the membran of the cell and the organelles
The size of the cell membrane is 8 nanometres


Biochemistry
Carbohydrates are made of C H and O . When these are put together in the correct combination and shape (pattern) they make glucose, starch, sugar, fructose, maltose, lactose ( ending in ose tells us they are sugars). They are commonly used to provide energy.

Proteins are made of C, H, O and N. Proteins are generally referred to as chains of amino acids. This means amino acids are made of C H O andN and when chained together in a repeating pattern they form a protein,

Lipids are made of C H and O, they are similar in composition to carbohydrates but always have double bonded O and hydroxyl group at one end

Nucleic acids are made of C H O and N they have an acid group ( like lipids) and a N (like proteins) in their make up
.

Energy in the cells

Role of glucose.jpg

What is ADP and ATP?
ADP = adenosine Di Phosphate
ATP = Adenosine Tri Phosphate or ADP + P where P = phosphate
see figure 3.10 The ATP and ADP cycle


Photosynthesis
simple
process whereby the plant produces glucose and oxygen by combining Carbon dioxide and water in the presence of chlorophyll and light energy

Complex
the equation you must know :
The chloroplast has 2 distinct parts
Stroma
Granae or Lamellae
chloroplasts stroma and grana.jpeg
The photosynthesis has 2 part the light dependent part
and the light independent part

The light-independent stage relies on the light-dependent stage for a source of energy in the form of ATP.
The light-dependent stage is also a source of hydrogen ions and electrons for the light-independent stage.

the light dependent part occurs on the flat surfaces of the lamella or granae -- here the light energy is used to break down water into ions and to boost the electrons Energy level to store the energy for later use in the light independent stage. And this is done using molecules like ADP to ATP and NADP to NADP+. H+ and OH-

In the light-dependent reactions of photosynthesis, the energy from light propels the electrons from a photosystem into a high-energy state. In plants, there are two photosystems, aptly named Photosystem I and Photosystem II, located in the thylakoid membrane of the chloroplast. The thylakoid membrane absorbs photon energy of different wavelengths of light.
light and dark rxtn and where in the chloroplast.png
lots more detail here

http://www.biotopics.co.uk/a2/light-dependent_reactions.html


The light independent stage ( the Calvin cycle) revolves around joining Carbon dioxides together to form the glucose molecule.
light and dark rxtn.png
much more information here

http://www.biotopics.co.uk/a2/light-independent_reactions.html

Here is another version and comparison of the photsythesis

http://www.shmoop.com/photosynthesis/light-independent-reactions.html

So finally whats the major differences between the light and dark reaction of photosynthesis?
http://www.majordifferences.com/2013/12/difference-between-light-and-dark.html#.VsVJb5N96Rs

Respiration

Takes place in the mitachondrion
Two type -anaerobic and aerobic

Aerobic - 3 stages

stage 1
Glycolysis
occurs in the cytosol
Glucose ---> pyruvate (and releases 2 ATP)
Stage 2
Krebs Cycle
occurs in the matrix of the mitachondria
Pyruvate + oxygen -----> carbon dioxide + water + 32 ATP
stage 3
Electron Transport
on the inner membrane of the mitachondria

Anaerobic respiration

stage 1
occurs in skeletal muscle cells

Glucose ---> pyruvate (and releases 2 ATP)
and then the pyruvate becomes -----> Lactic acid
Anaerobic respiration is also used by bacteria and yeast to create ethanol
stage 1
occurs in yeast

Glucose ---> pyruvate (and releases 2 ATP)
and then the pyruvate becomes -----> ethanol + Carbon Dioxide
the production of the CO2 gives rise to the bubbles/ air pockets in bread. or the bubbles in beer or wine.

Detailed slide show of respiration

http://slideplayer.com/slide/6089175/

COMplete stagesof respiration.jpg

MAintaining homeostasis

http://homeostasisinhumans.weebly.com/theremoregulation.html
this site has notes on all types of homeostasis
Feedback loops
Screen Shot 2013-04-23 at 2.58.11 PM.png


Kidneys

http://interactivehuman.blogspot.com.au/2008/06/animation-kidney-parts-of-nephron.html
the animation above describes the way the kidney works

http://www.abpischools.org.uk/page/modules/homeostasis_kidneys/index.cfm?coSiteNavigation_allTopic=1

Things I know about the kidney
its role is
It has to be careful not to excrete useful molecules and does this by

1. filtration
2. osmoregulation
3. creating diffusion gradients
4. using hormones to control reabsorption

Notes on how the kidney functions

The nephron is the basic part of the kidney. The renal corpuscle (bowmans capsule + glomerulus) and proximal tubule in the Cortex an the loop of Henle in the medulla.
1. Filtration in the renal corpuscle
2. reabsorption of water and ions and nutrients in the proximal
3. The loop of Henle - creates a steep osmotic gradient which allows the kidney to reabsorb water and hence concentrate the urine.
4. the distal tubule reabsorbs water but is under control of hormones
5. urine forms in the collecting tubule/duct

How the loop of Henle works

1. It is a counter current exchange the first part of the loop, the down flow, is permeable to water and not solutes. THe second half of the loop the up flow is not permeable to water but is permeable to ions and partially to urea.
2. Hence osmosis works on the descending limb of the loop
3. the result is the solution inside the loop is becoming more concentrated as the you go deeper into the medulla
4. diffusion works on the bend of the tube of the ascending limb of the loop and active transport of ions works on the remainder of the ascending limb


The loop of Henle is an example of a positive feedback loop
because the active transport of ions on the ascending limb creates conditions necessay for osmosis to occur on the descending limb. Because osmosis has occurred on the descending limb the remaining filtrate is Na and Cl concentrated and these are actively pumped out on the top of the ascending limb.

Hormones in the kidney

Remember that the kidney is an area of millions of capillaries. When you consider the above functioning you need to remember that the ions pumped out are reabsorbed into the blood.
Therefore , low Na+ in the blood causes the release of aldosterone. Low Na+ means lots of water was in the urine. The release of aldosterone causes Na+ to be reabsorbed by surrounding tissue and hence more is pumped out of the ascending tubule and hence water follows dues to osmosis and this inturn concentrates the urine - urine is not as watery.

ADH (anti diuretic Hormone causes the distal tubule and collecting duct to be more permeable to water This means water will be reabsorbed in to the surrounding tissue instead of being excreted. This decreases water loss.

Inspidus Diabetics produce copious amounts of urine because they produce little or no ADH.

The overall role of the kidney is to maintain homeostasis. This means the removal of waste or maintaining the correct levels of water, salts (ions) int the blood.

Diseases in the kidney and how they affect homeostasis.
kidney stones

Tissues and organs of vascular plants

Transport in plants is the role of xylem and phloem. The process of moving water up the xylem is controlled by physical processes that revolve around the physical properties of water ( capillarity, adhesion, water tension, absorption, osmosis
Transpiration is the loss of water through the stomata of the leaf. To this extent we can say energy from the sun powers this process. (because evaporation of water from teh leaf leads to the replacement of the water by transpiration.

Translocation is the movement of glucose loaded solution down from the leaf (where photosynthesis has occurred) to the roots. This solution travels in the phloem.
Excess glucose can be converted to starch and stored in roots of some plants ( potatoes or in the fruits of others eg pumpkin .


Structure of Xylem and Phloem

1. Xylem vessels
The most distinctive xylem cells are the long tracheary elements that transport water. Tracheids and vessel elements are distinguished by their shape; vessel elements are shorter, and are connected together into long tubes that are called vessels. Xylem also contains two other cell types: parenchyma and fibers.

Transverse sections
When observing xylem look for spiral thickening in the vessels. Also look for larger diameter vessels that me appear hexagonal ( when compared to phloem). Xylem have slots in their ends to allow water to easily pass through.

Longitudinal sections
The xylem look like long tubes with almost horizontal stripes. These stripes are the lignin thickenings.

Old xylem often called metaxylem are the components of wood. The lignin that forms the rigid spirals in the xylem get stronger and fills in the metaxylem. These are the ones that form growth rings that can be seen in Transverse sections of wood.

Phloem cells

. Phloem is composed of several cell types including sclerenchyma, parenchyma, sieve elements and companioncells. The sieve element and companion cell are found closely associated with each other in what is referred to as the sieve element/companion cell complex.
The sieve cells are often compared to the shape of a pepper pot.
Small and stout with a dotted plate at either end to allow solutions of glucose (mainly converted to glucose) and sugars to pass through. This solution is actively transported down the phloem also diffusion can occur as sugars are pushed down the phloem from an area of high pressure near its site of production to regions of lower pressure where the sugars are used.


An exercise to examine the different plant tissues and their role in transport in the plant
https://vcebiology.edublogs.org/tag/xylem/

Transport in Plants



external image xlem-blue-and-phloem-pink.jpg
Photo Source

Biology 4 Kids: Xylem and phloem
Look through the virtual microscope at xylem and phloem cells.
What Wikipedia says about vascular tissue in plants.
WikiAnswers: What’s the difference between xylem and phloem?
Different types of plant tissues – including good diagrams.
Plant structure, including more good diagrams, photos and microscope images of plant tissues.
Plant Structure II, showing a comparison of monocots and dicots – including arrangement of vascular tissue. Moncotyledons are plants with one seed leaf, parallel venation in their leaves and flowers with petals in multiples of 3 (eg. maize, rye grass). Dicotyledons (such as buttercups, celery and beans) have two seed leaves, reticulate venation and flowers with petals in groups of 4 or 5.
How woody plants grow – why trees develop concentric rings- Vascular tissue animation.
After completing the practical exercise on pages 64 to 66, describe the distribution of vascular bundles in monocot root xs and dicot root xs. How does this distribution compare to the distribution of vascular bundles in stem tissue of moncots and dicots?
How does ring-barking affect trees and why does this occur?


This entry was posted in Functioning Organisms, Uncategorized and tagged phloem, plant transport, tissue, vascular, xylem on May 5, 2009.

Chapter 5 Adaptations for survival

Lots of this chapter is self evident as long as you remember that living organisms require nutrients, oxygen and shelter for survival.

The amount of each depends on the organism and the environment it is in.
See the example rule of 3s p 194

Every organism has a tolerance range - within this its called the optimum range at the periphery its still in the tolerance range but outside this tolerance range survival is not expected (or at the very least it is limited)
Outside the optimal range the organism is the the zone physiological stress and beyond that the zone of intolerance.
Any condition that approaches or exceeds the the limits of intolerance is called a limiting factor.

Organisms often are selected via natural selection if they have a characterisitc that helps them to survive beyond the limiting factors.
Read table 5.1 for examples of limiting factors.

Water is essential for life

water in - water loss = 0 ( water in = water out)
Chemistry of water p 200
water is a great solvent _ lots of things (except oil) dissolve easily in water
Water resists temperature change - water can store a lots of energy eg it takes 4186 J per Kg to heat water 1 degree whereas it takes 1046 J to heat 1 kg of air 1 degree.
This means water will stay hotter than for longer than air - think of how the bay stays warmer even after a cool change comes through.
Water has a high heat of vapourisation this means that if water is evaporated from the skin of an animal it will cool it down quickly because 2260 kJ / kg of heat is lost

The high heat of vaporisation and specific heat capacity of water are factors in preventing the death of firefighters in a bushfire (p 233-4)

Water loss in humans

see table 5.2
water is taken in by fluid and water and metabolic water (respiration)

Adaptations for survival desert animals

compare the structure of a kidney
thickness of medulla divided by kidney size is positively correlated with the capacity of the kidney to concentrate the urine and so reduce water loss.
1. a reduction in glomerular filtration means less fluid leaves the blood
2. an increase in tubular reabsorption (because the loop of Henle is in the medulla)

Behaviour of an animal

1. keep out of hte sun _ nocturnal
2. fat stores located in the tail away from the main section of the body to allow quicker heat loss
3. SA : vol Greater SA : Vol means quicker heat loss -- think of elephants ears
4. being able to extract more water for a food than animals from temperate environments
see fig 5.20
an outline oof water balance for survival of the tarrakawarra ( desert hopping mouse)
5. hibernation or laying dormant eg Frogs in the outback.
6. migration - moving away from hositle conditions see fig 5.22
7. Laying eggs and then dying off
8. specific characterisitic

Vegetation types in arid Australia

1. leaf shape
2. density and size of the shrub (eg Spinifex, salt bush)
3. curling leaf
4. sunken stomata - pit stomata
5. leaf colour (silver)
6. leaf structure - feathered, palmate, divided
7. leaf margins - thinner edgesof the leaf loe heat quicker than the fatt central part of the leaf
8. leaf orientation _ hanging vertically away fro the sun
9. Rolled up leaves
10. no visible leaves
11. leaves that aren't leaves- flattened stalks - phyllodes
12. producing drought resistant seeds - ephemeral plants - they have a life cycle of 2 to 3 weeks flower and produce seeds and the species goes on.
13. dormant plants

Survival in the cold

1 ice kills - water expands when it freezes. Frozen water can explode cells ( plants and animal)
2. water freezes at 0 deg C
3. very Salty water freezes at -18 deg C - animals with hi salt content acts as anti freeze - listen to Dr karl podcast. - the frozen wasp - start from 6min
https://www.google.com.au/url?sa=t&rct=j&q=&esrc=s&source=web&cd=2&ved=0ahUKEwjB-pWQ49fLAhXFq5QKHQcNCAsQFggiMAE&url=http%3A%2F%2Fwww.abc.net.au%2Fscience%2Faudio%2F2011%2F10%2F20%2F3344300.htm%3Fsite%3Dscience%2Fdrkarl&usg=AFQjCNED0_T7N99bfDaH3Yf9_Ca9hqPp5Q

4. Insulation layers - fat, blubber
5. hibernation
6. Countercurrent exchange systems to warm the blood - see fig 5.48 p229

Adpatations of plants

1. high salt content or high sugar content - see table 5.6
2. Bark
3. deciduous - no leaves to freeze
4. thick trunk lo SA to Vol

The BioChallenge p 235


Chapter 6
Homeostasis
Thermoregulation and Glucose regulation
1. Thermoregulation
IMG_1977.JPG

IMG_1984.JPG

IMG_1979.JPG

2. Blood sugar regulation (glucose regulation)

Blood glucose levels: too low

If the blood glucose level falls below normal, this stimulus is detected by the pancreas and the following responses occur:
  1. (low blood glucose) The alpha cells of the pancreas (see figure 6.38) increase their production of the hormone glucagon. Glucagon acts on liver cells, stimulating the conversion of the storage polysaccharide, glycogen, to glucose that is released into the bloodstream. Glucagon also stimulates the synthesis of new glucose from other compounds in cells, such as amino acids.
  2. The beta cells of the pancreas decrease their production of insulin so that the uptake of glucose from the blood into body cells is reduced.

IMG_1972.JPG

Blood glucose levels: too high

If glucose levels in the blood increase above the normal range, glucose must be shifted from the blood into the liver and muscle where it is stored as the polysaccharide, glycogen.
When blood glucose levels rise above normal limits, the beta cells of the pancreas detect this increase and initiate a response in which insulin production is increased and glucagon production is decreased (see figure 6.39). The increase in the circulating hormone, insulin, acts on body cells, facilitating their uptake of glucose from the blood into body cells, especially muscle and fat cells.

Insulin molecules bind to receptors on the plasma membrane of cells. The binding produces a signal that causes glucose transport proteins enclosed in vesicles within the cytosol to move to the plasma membrane. Once there, the transport proteins form trans-membrane carriers that enable glucose to move into cells by facilitated diffusion.



IMG_1974.JPG


IMG_1975.JPG

IMG_1976.JPG



Chapter 6 - Homeostasis
focus on
1 glucose balance - effect of insulin , glycagon
2. temperature balnce
3. water balance
Kidney function
Function of the nephron.gif


Chapter 7 - Biodiversity and its organisation
What is biodiversity?
Biodiversity is the wide range of species existing in an area. An area very high in biodiversity is called a hotspot. Go here to view the hotspots in Australia
http://www.environment.gov.au/biodiversity/conservation/hotspots/national-biodiversity-hotspots

Benefits of classification
  • provides tools for exact communication
  • Predictions can be made due to the nomenclature you can identify close relatives or propose features of extinct species within the same genus
  • provides evolutionary pathways
  • Information about items can be easily retrieved

The 2 kingdom system -
first proposed by Carl Linaeus - Animals and PLants - later (1965 Whittaker) changed to a 5 kingdom system
The separation of fungi from plants was made due to the presence of chlorplasts being absent from all fungi- advancements in technology and investigation processes allowed moer information to be collected and so the system was changed

Taxonomy is not static and some species may be reclassified into different genus or families
An exampleof this is some of the Australian grevillea (plants)
Principles of classification up to Phyllum level
1. the kingdoms
5 kingdoms.jpeg

5 kingdoms 2.jpeg


FUrther studies have shown the need for DOMAINS.
these are higher than kingdoms. This claasification structure was propsed by Woese in 1990.
Woese and collegaues eschewed the use of structure, morphology, nutrition modes and focussed on classifying using the molecular criteria such as ribosomal RNA genes and other genes and specific proteins found in all organisms

Here is a link to some further backgroundhttp://www.softschools.com/science/biology/classification_of_living_things/

http://www.softschools.com/science/biology/kingdoms/

Its important in this area of study you don't over analyse - after all putting objects into groups is a rather human thing to do - (though some bowerbirds do this also). this taxonomy can be arranged in many ways depending on your focus. However the lateest version of our classification system is thought to be the most efficient way to organise them and identify new organisms. the latest emphasis on DNA has lead to some reclassification.
The whole idea is to group similar organisms.At the kingdom level if you are an organism with chloroplasts you are in the plant kingdom.

all the organisms in the kingdom Plantae may have chloroplasts but there are significant differences between them - at the next level of classification they can be divided into those organisms with vascular bundles. And you can further divide this group into those that have flowers and those with cones(pine trees)

So you can see the division is fairly arbitrary . The initial divisions are based on very general characteristics. As you get closer to a more specific grouping more and more specific characteristics must be possessed to belong to each successive grouping as you go down the classification levels

EG Kingdom very generalPhylum - still generalClass - more characteristics in commonOrderFamilyGenus very specific- organisms in this group are very similar but - there are still organisms that be grouped based on very specific characteristics- cannot reproduce and produce fertile youngSpecies—very specific, can reproduce and produce fertile young


SO the overview of the kingdoms can be seen as this-- also see the table belowto belong to the Kingdom PLantae - you need chloroplaststo belong to the kingdom Animalia - you need cells without cell walls and be a heterotropht belong to the kingdom Fungi - you need cell walls - no true vascular tissue and no chloroplasts but feed off cells of other organismsto belong to the kingdom Monera - unicellular and prokaryotic - non membrane bound organelles, extremely tiny - bacteria and archaeato belong to the kingdom Protista - you need to be unicellular and eukaryotic


comparing the 5 kingdoms.jpeg
How classification of living things go in to kingdoms


major phyla of the animal kingdom
major animal phyla.jpeg



CHap 8 Ecology
Interactions and trophic levels
when you analyse the diversity of species in an ecosystem you can identify the ways each species relates to another. One common interaction is eating or being eaten
Autotrophs - plants or poducers - make their own food - Level 1 trophic level
heterotrophs - consumers - level 2 trophic level and above eat autotrophs and are called herbivores (first order consumers) or eat herbivores and are called carnivores (second order consumers and above)

We can represent the flow of energy through an ecosystem with a food chain - linear or a food web which combines a number of foodchains
TrophicWeb.jpg


The diagram above really should have arrows to show the direction the energy flows -- ie from the tree to the mushroom to the squirrel to the snake (this is one food chain ) or here is another food chain from the tree to the mushroom to the squirrel to the fox and there are lots of other food chains depicted with in the is food web.
Pyramids of numbers and pyramids of biomassPyramid of numbers compared with pyramid of biomass Figure_46_02_02.png
THe diagrams above show a range of pyramidsnote the biomass uses dry weightEnergy uses kcal ( a measure of energy like joules) per square metre per year
Some otherspyramid of numbers cf biomass 3 gives trophic levels.jpg

Note how the pyramids can be invertedAnd the diagram below clearly shows the difference between the types of pyramids and gives some examples
Pyramid of numbers compared to biomass 2.jpg




biodiversity and its organisationClassification
Sampling ecossytemsTo get an understanding of an ecosystem you need to be able to identify the species that live there and then identify their interaction
One aspect of the species is their abundance - ie the size of the population. Just the number is not enough the density is also important as this can also be affected by their distirbution.
Different organism types have their abundance measured in different ways.
eg plants may be measured in numbers per metres squared in the case of weeds.but for trees it might be better to have numbers per km squared. But amoeba might be bettter measured in numbers per mLs
To measure distribution and abundance in the field 2 main techniques are used


1 transect--
a straight line or narrow section through an object or natural feature or across the earth's surface, along which observations are made or measurements taken.
vegetation transect mangrove-pulgul-structure.jpg

Vegetation transect1840_harringtonb-1.gif
2 quadrat


How do you use a Quadrat?

Ideally every place within the sampling area should have an equal chance of being sampled, each time a sample is taken. To achieve this, place a tape measure along two sides of the area being studied. Then find random coordinates as follows: The length of one side of the quadrat forms the sampling interval.

Count the number of each species
some times % coverage is better


quadrat 1.jpeg

quadrat 2.jpeg
quadrat 3.jpeg
quadrat 4.jpeg

Putting all this together
here is an article that shows the abiotic factor - phosphorous availability in the soil governs the growth of trees in the blue mountain
http://www.regional.org.au/au/asssi/supersoil2004/s11/oral/1840_harringtonb.htm

Our transect and quadrat results go here


Populations
Population is the number of organisms of a species in an ecosystem.
they can be distributed in a uniform, random or clumped manner

it can be measured in terms of its abundance - ie how many or measured over a linger term by
calculating the Growth Rate = (birth rate + immigration rate) - (Death rate + emmigration rate)

You can also compare numbers of females to males in a population

Factors impacting a populations include
Number of predators
ammount of food,
amount of shelter
availabilty of a mate
competition for food from other species as well as other members of your species
Ammount of disease and parasites
favourable weather conditions - eg no blizzards to kill alll the babies.
Built in behavioural factors that limit an adults ability to breed - eg kangaroo and joey
seasonal factors -
number of fertile organisms ( eg not all too old or too young)
Mortality rate.

Migration
emmigration leaving
immigration new organisms of a species arriving
general migratory pattern - a population moving off after food

Affecting growth rates
1. r-selection - in general they produce lots of eggs and seed to ensure survival of their species eg insects, turtles, fish,
2. k - selection - in general they go for quality over quantity - these individuals put a lot of effeort into raising the young, eg most mammals, fewre offspring but better prepared for survival


Interactions
Ammensalism - I'm all right jack - too bad about you
plants that practice allelopathy - the production of chemicals that inhibit the growth of other species and individuals.. Allelochemicals are teh chemicals that inhibit the growht. some seeds have a small amount of allelochemicals which prevents the growth of nearby seeds and hence allow their roots to develop quickly and access resour