BIOL 112 – Biology of the Cell

Lots of

• Launchpad

• Go to class! I learned more in class than on my own for this course.

• Analogies

Tips for success

• You have to buy Launchpad to do the weekly pre reading assignments

• The weekly pre reading assignments are really short and easy. Do not stress about them

• Exams are first done individually and then done as a group.

• If you’re in Dr Smith’s class, clicker marks are participation based so don’t worry about getting them wrong.

• Important: Keep up with your pre readings.

• Even if you take notes on a computer, bring a pen because there are hand-in at the end of the lecture assignments.

• It’s hard to get a good seat. Come to class on time.

• There are unfortunately no old exams available to study from. Dr Smith does give you a mock exam though.

Suggested professor: Dr Karen Smith

PHYS 117 – Physics

Tips for success:

• You must bring an electronic device to class to answer in-class problems

• Perusall is due every Sunday night. You have to put online comments about the assigned

textbook reading and reply to classmates’ comments for marks. PRO TIP: if you have trouble coming up with questions, answer your classmates’ questions instead. Pro TIP: the diagrams are good places to ask questions.

• Mastering Physics are online problem sets that are due every week. Carve out time to work on these. Sometimes they can be challenging.

Continue reading “PHYS 117 – Physics”

Eng 112 – Strategies for University Writing

You’ll learn:

  • critical reading of academic texts
  • how to write to communicate effectively

Class structure

  • mandatory regular attendance
  • participation in class activities and discussions.
  • In-class essays
  • Take-home essay(s)
  • 3-hour final examination at the end of the course where you’ll be asked to write essays

Lots of

  • Implementing “They Say I Say” into your writing style. You’ll find out what They Say I Say means every soon.
  • Pointing out what established academics have done wrong in their writing

How to get a good grade:

  • Actually do the assigned reading before class
  • Bring the book or print out the reading to bring to class so you can refer to it during discussion.
  • You can bring a digital version.
  • IMPORTANT: Speak in class!! 1) you get participation marks. 2) you force yourself to organize and vocalize your thoughts. 3) your professor will learn that you’re alive.
  • Your professor will often not write or present any notes but you should take notes on what is being discussed.
  • Take notes on good points that your classmates bring up.
  • Start working on your final paper early
  • Choose a final paper topic that you’re personally interested. Do not choose a topic solely because you think your professor will like it. If you find your own topic boring, you will write a boring paper and your professor will cry while drinking coffee trying to read your paper.
  • Go get at least two physical books when you’re conducting background research.
  • The UBC Libraries are great resources.
  • Spend time working on a good thesis.
  • Talk to your professor at office hours if you have questions

Suggested professor: Dr Lorcan Fox (he’s hilarious!)

 

First year classes for UBC Life Science majors

First year schedule at top,

Click “Continue Reading” for asnwers to Frequently asked questions about First year course scheduling below

You should choose your first year classes based on what majors you’re interested in. You only have to take certain classes if you’re interested in a particular major, e.g. two semesters of physics if you’re interested in the Physiology (CAPS) major. That said, most first years in the Faculty of Science have roughly the same schedule to meet the Lower Level requirements set by the Faculty of science.  I knew I was interested in a life science major such as Pharmacology, Microbiology, Biology, Physiology etc so I choose my first year classes so that I fulfilled the course requirements to apply for these majors. If you’re interested in more about choosing a major particularly a life science major, I intend to write a post on Choosing a Major in the future.

Click on the name of the course to read tips to do well in that specific course

First Year First term:

First Year Second Term

 

Frequently asked questions:

Should I take BIOL 112 or BIOL 121 first?

BIOL 112 in my personal opinion. Absolutely BIOL 112 if you’re claiming AP Bio credit and want to take a second year biology class term 2. If you’re not claiming bio credit, it doesn’t matter but I personally think the content of biol 112 (cell biology, metabolism etc) is a good foundation to build on for further studies in biology.

Continue reading “First year classes for UBC Life Science majors”

UBC Second Year Courses for Pharmacology, physiology and how to study

First term

  • CHEM 233 – Organic Chemistry
  • CHEM 235 – Organic Chemistry Lab
  • BIOL 200 – Cell Biology
  • PCTH 201 – Drugs and Society
  • STAT 200 – Statistics
  • (Note: You should take CHEM 211 here if you’re a Honours Physiology or Pharmacology major. )

Second term

  • SOCI 102- Sociology
  • PHYS 118 – Electricity and Magnetism
  • BIOC 202 – Medical Biochemistry
  • CHEM 205 – Physical Chemistry
  • PSYC Introduction to Psychology

These classes were really useful for the MCAT

  • BIOC 202
  • BIOL 200
  • PHYS 118
  • SOCI 102
  • PSYC 101

CHEM 233 Organic Chemistry

  • I had Dr. Jackie Stewart as my professor and she’s great. Super enthusiastic about what she teaches and willing to help us if we don’t understand.
  • Don’t take 8 AM Ochem though. You will regret signing for 8 am class every morning until the end of the term. You’ve been warned.

CHEM 235 Organic Chemistry Lab

  • Very useful class.
  • Your TA and your benchmates are your saviours. Love them, be nice to them, help them. You all are part of a team.

PCTH 201 Drugs and Society

  • I highly recommend this elective. It inspired me to major in Pharmacology and Neuroscience!
  • Dr. Horne is awesome. Enough said. Take this class.
  • If you put in the effort, you will do well in this class.

STAT 200 Statistics

  • highly recommend this elective too. Very useful if you do research.
  • The midterm was really challenging so our professor changed the grading scheme so that more weight was on the final.
  • I went to office hours so often that my professor, Dr. Lang, started to anticipate that I would be back the next week haha. Use office hours!

BIOL 200 Cell Biology

  • The material was really cool but the exams are difficult to do well in.
  • The problem sets have no answers and this will anger you while you study. You don’t understand me now but you will later. Going to office hours for answers helps only mildly.
  • You will want to tear out your hair writing your press release because you don’t fully understand the article you’re supposed to be advertising.
  • To be honest, if you don’t need this class and are not taking it for interest, avoid this class. It’s a lot of work and the exams and assignments are frustrating.

Term 2:

BIOC 202 Medical Biochemistry

  • Dr. Williams will play biochemistry songs. He’s cool.
  • I found this class pretty interesting! You will too probably if you’re interested in medicine, pharmacy, nursing, etc because there are many examples related to medications and medical conditions.
  • the exams were tough even with tons and tons of studying
  • Study tip: Study with friends before exams! It helps to explain your answers and quiz each other on details and draw out pathways on whiteboards.

CHEM 205 Physical Chemistry

  • Our professor provided us with tons of practice exams and problem sets – such a blessing.
  • Class attendance is optional – just a FYI for all you self-learners out there.
  • I can’t say I found the material particularly interesting but the material is useful for the MCAT and understanding biochemistry.

PHYS 118 Electricity and Magnetism

  • Useful class, interesting class, easy midterms but the final was difficult because it covered everything from the beginning to the end of the semester.
  • There are clicker questions every class so be prepared.
  • Tutorial is optional but I highly recommend attending to get guidance from the TAs.

SOCI 102 Sociology

  • I was super excited to attend class!
  • Dr. Neil Armitage is the man you want for your professor.
  • The written assignments are difficult to do well on though
  • My TA was really helpful for tips and feedback if you’re struggling with writing.

PSYC 101 Psychology

  • After I took this class, I decided to change my major to Neuroscience and Pharmacology so you can guess how much I loved this class.
  • Easy to do well in if you attend class and study a reasonable amount. I’m not sure why this class is notorious for being alarmingly difficult. My guess is that it might be difficult if you take this first semester of first year when you’re not used to the workload of university yet.
  • Dr. Luke Clark is super cool and a good professor.

Lessons learned from midterms

IMG_7443

Lessons learned:
– Don’t nap right before a math exam. You need to be quick and alert. I should have warmed up my responses instead. Seriously, don’t nap.
– I really need to work on my response speed when doing math questions. When preparing for the next midterm, I should do practice tests under timed conditions.
– I should also do any practice questions in general under 8 minutes.
– Learn shortcuts to do math with.
– Save time to check my work during math exam!!
-DOUBLE CHECK IN STEP 2!
– Specifically I had trouble identifying the pattern when given a series of numbers. I only found the pattern when I wrote out the series in full.

– On my next bacteria and virology, details details details. What if ___ or if this disease___ were common questions.
-If I ever take a class with Dr. Kion, I’ll fine comb through slides. Her slides contained all the  minutiae details that were tested. I don’t know if this will apply to bac/vir because we have different professors for bac and vir

– Next time I only have 3 and half hours, I should just stay on campus instead leaving. I did a 45 min light run at home but if I wore runners and non-jeans, I could work out at school instead before my exam. In addition, I would have enjoyed reading a book for my English class before my exam

Animal Transport

ANIMAL TRANSPORT PRE-READING NOTES

when in doubt, there is probably a pressure gradient

KEY CONCEPTS

  • Animals require oxygen intake and carbon dioxide expulsion to sustain cell respiration.
  • Gas exchange organs maximize the rate of O2 and CO2 diffusion by
    1. large thin surface area
    2. steep partial-pressure gradient favouring O2 in and Co2 out.
  • Blood is specialized tissues that transport gases, nutrients, wastes
    • Hemoglobin = protein that carries oxygen
      • Very good at take up oxygen at lungs and other gas exchange organs
      • release oxygen at tissue
  • Circulatory systems use positive pressure generated by one or more hearts to transport stuff throughout body.

Major questions:

  • How are oxygen and Co2 exchanged with the environment? (Oxygen and Carbon dioxide important bc associ with cell resp
  • How are these gases along with nutrients, waste, etc transported throughout body?

8.1 Why is respiration and circulation necessary for animals?

8.2 Air and water as respiratory media

  • What is the differences between total pressure and partial pressures of a gas mixture?
  • Why are the partial pressures of gases such as oxygen and carbon dioxide important?

8.3 O

rgans of gas exchange

  • What is the importance of the various parts of Fick’s equation
  • Describe how fish gills generally work.
  • Describe with detail how the fish gill is a countercurrent exchange mechanism. What is countercurrent exchanges?
  • How do vertebrate lungs work?
  • Must name the main structures of mammalian lung
  • What are the mechanisms of ventilation of the mammalian lung?
  • How do changes in pressure result in lung ventilation?
  • Explain the concept of “dead space”
  • How do bird lungs work?

ANSWERS

How do animals exchanges gases with the environment and transport substances within their bodies?

8.1 Brief overview of respiratory and circulatory systems.

  • Important bc need to O2 to produce ATP.    Making ATP makes Co2. You need to get rid of Co2 because it can become acid in your blood. Not good.
  • What are the four steps of gas exchange between environment and mitochondria?
    • Ventilation   = air or water moves through specialized gas exchange organ  (lungs, gills)
    • Diffusion at respiratory surface
    • Circulation  = transported in circ system
    • Into tissues where O2 low due to cell respiration
  • Which system helps with ventilation and gas exchange with the environment?
    • resp system
  • which system help with transport in body and exchange into tissues
    • circ sys

8.2 Air and water as respiratory media

  • DIFFUSION!!!
  • How much oxygen in environ vs tissue?
    • oxy high in enivorn and low in tissue so oxygen wants to go from environ to tissue
  • carbon dioxide in environment vs tissue
    • carb dix lower in envir than in tissue cuz in tissue there is lots cuz produced from cell resp. so co 2 tend to go from tissue out to environment

What is the differences between total pressure and partial pressures of a gas mixture?

  • partial pressure = pressure of a particular gas in a mixture of gases
  • partial pressure is like percentage of that gas in a mixture  but gas style
  • Partial pressure  = (fraction)  of  ( total pressure of mixture).
    • fraction = what fraction that gas is of the total air
  • atmospheric pressure = 760 mmHg
  • note: our atmosphere is mostly N2 and oxygen with a little co2 and argon. we ignore nitrogen and argon bc not useful to us

Why are the partial pressures of gases such as oxygen and carbon dioxide important?

  • oxygen and carbon dioxide diffuse between the environment and cells along their partial-pressure gradients
  • move from high partial pressure to low partial pressure

Compare water breathers with air breathers

  • water breathers face more challenge than air breather
  • the oxygen content of water is less than the oxygen content of air
  • so water breathers have to take in much more water than air breathers need to take in air

8.3 Organs of gas exchange

How do small animals that lack lungs or gill exchange gas?

  • diffusion across body surface is rapid enough to fulfill gas exchange needs
  • e.g. sponges, jellyfish
  • but must live in wet environment
  • skin must thin which is no protective, prone to water loss

so animals that are big, live in dry (e.g. land

  • respiratory organs provide greater surface area for gas exchange, large enough to meet gas demands of body cells
  • land animals – lungs inside body to minimize water loss

What is the importance of the various parts of Fick’s equation?

  • Fick’s law of diffusion = rate of diffusion depends on 5 things
    1. solubility of  gas in the aqueous film lining gas-exchange surface
    2. temperature
    3. surface area available for diffusion
    4. difference in partial pressures of gas across gas exchange surface
    5. thickness of the gas exchange surface
  • So gas will diffuse quickly if very soluble, high temperature, lots of sruface area, big diff in partial pressures, thin surface
  • Fick’s law states that all gases, including O2 and Co2, diffuse in the largest amounts when three conditions are met:
    • A is large.   – lots of surface area for exchange
    • D is small   – thin surface
    • P2 – P1 is large. large partial pressure gradient    -> maintained by efficient circ sys in contact with resp surface.
Figure 8.3 in page 169 of "Fundamentals of Physiology"
Figure 8.3 in page 169 of “Fundamentals of Physiology”

Describe how fish gills generally work.  (not very important)

  • gills = body surface or throat used for gas exchange
  • large surface area for oxygen to diffuse across a thin surface
  • Some gills contact water directly
  • internal gills: water must be pushed over gills by cilia, limbs or other
  • fish gills located on both sides of head,
  • operculum = tissue cover gills
  • pumping action of mouth and operculum creates pressure gradient  -> cause water to move over gills (Obs: all  of this plant/animal class is All about the gradient: pressure, solute, concentration etc. Always from high to low)
  • ram ventilation = fast swimming with open mouth
  • water flows in one direction over gills
  • water passes through gill filaments ->  gill lamellae -> capillaries  – > gas exchange

Describe with detail how the fish gill is a countercurrent exchange mechanism. What is countercurrent exchanges?

  • one way flow of water through gill lamellae
  • flow of blood through capillaries in lamellae is OPPOSITE to flow of water
  • counter current exchange = two fluids flowing in opposite direction
  • lamellae always have oxy press gradient
  • So water is always adjacent to capillary blood with LOWER oxygen content so large partial pressure gradient
  • most of oxygen in water diffuses into blood
  • If concurrent flow, then oxygen transfer stops where partial pressure gradient stop bc same partial pressure.
  • counter current flow makes gills effcient at extract oxygenfrom water
    • because difference in partial pressure of oxygen and carbon dioxide in water vs blod maintained over entire gas-exchange surface (lamellae)
  • effect of counter current change = maximum P2 – p1 difference  over entire gill surface

Must name the main structures of mammalian lung

  •  trachea  – tube
  • bronchi
  • bronchioles
  •  lungs = organs of ventilation, foldings of throat
  • alveoli  – surface area: thin film, 1 layer epithel, extracellular matrix, wall of capillary

What are the mechanisms of ventilation of the mammalian lung? How do changes in pressure result in lung ventilation?

  • actively contract muscles to pump air
  • negative pressure ventilation  – pressure gradient
  • changes pressure in chest cavity
  • inhalation = increase cavity volume by contract diaphragm, which decreases lung pressure
    • diaphragm downward, ribs outward
    • active
  • exhalation = passive except exercise
    • lung is elastic = return to original shape (normally collapsed shape)
    • chest cavity volume decrease

Explain the concept of “dead space”

  • dead space  = portions of air passage that do not have respiratory surface e.g. trachea, bronchi
  • = why only 2/3 of 450 ml in per breath partakes in gas exchange
  • breathing = more efficient during exercise cuz chest cavity greater changes in volume

How do bird lungs work?

  • one way airflow through avian lung
  1. posterior air sacs fill with outside air    – inhalation
  2. lungs fill with air from posterior sacs    – exhalation
  3. anterior air sacs fill with air from lungs   – inhalation
  4. anterior air sacs empty   – exhalation

 

  1. inhalation, air flows through trachea and enter two posterior sacs
  2. exhalation, air leaves posterior sacs, enters parabronchi
  3. inhalation 2    air into parabronchi in anterior lung, then to anterior air sacs
  4. exhalation 2   air out of anterior, thru trachea, out to atmosphere
  • less dead space = dead space is restricted to short stretch of trachea between mouth and opening of anterior air sacs.
  • gas exchange during both inhale and exhale
  • blood circulate through bird lung in capillies that cross parabronchi perpendicularly. cross current is less efficeint than countercurrent (fish) but better than weblike capillaries in mammals

 

CIRCULATORY SYSTEM

  • carries blood or hemolymph into close contact with every cell in body
    • close enough that diffusion is efficient

(open and closed circ systems not discussed in class but expected to know the generally open and closed. details not needed)

open circ systems

  • hemolymph direct contact tissue
  • do not need to diffuse across wall fo blodo vessel
  • heart and body movement
  • hemolymph low pressure, low flow rate. ok for sedentary not needing much oxygen
  • insects

closed circulatory systems

  • blood flows in continuous circuit through body under pressure generated by heart
  • blood confined in vessels
  • high pressure -> high flow rate
  • blood flow can be directed to specific areas when needed

IMPORTANT to know types of blood vessels, general characteristics. won’t be discussed in class but will tested on exams

arteries = thick wall, take blood away from heart at high pressure

    • all have both muscle fibres and elastic fibres in walls
    • elastic fibres dominate aorta all  so can expand in response to high pressure
    • when contraction of heart ends, diameter of aorta return to resting state. elastic response propels blood away from heart    “secondary pumping
    • maintains forward blood flow between contractions
  • arterioles
    • sphincters = muscle fibres around circumference of vessels
    • control resistance to flow
    • Constriction relaxation controlled by nervous system
    • allows for nervous system to be able to control blood flow
    • When sphincters relaxed, arteriole diameter increases, resistance to flow decreases
    • when sphincters contracted, arteriole diameter decreases, resistance to flow increases, slow blood flow, can divert this blood floow to other tissues
  • capillaries  = one cell thick, low pressure
    • one red blood cell at a time
    • dense network throughout body
    • exchange
    • in some organs e.g. liver, capillaries have multiple openings so less barrier to diffusion
  • veins
    • all veins have some muscle fibres that contract in response to signals from nervous system, decreasing diameter and overall volume of vessels. Blood pressure in closed system is partially regulated by actively adjusting volume of blood within veins.
    • low pressure, thinner walls
    • larger interior diameter
    • flow speeded by moving limbs
    • one way valves  – prev backflow
    • muscle fibres contract when signals from nervous system say decreasing the diameter and volume of vessels
    • blood pressure is regulated by actively adjusting the volume of blood within veins
  • venules

Interstitial fluid. Focus on physiology of how lymph is formed.

  • interstitial fluid = fliud that fills area between cells
  • high pressure of closed circ systems + thin walsl of cappiles means that small but steady leake of plasma fliud from blood vessel
  • why does interstitial fluid build up?
    • there is outward-directed hydrostatic force in capillaries, created by the pressure on blood generated by heart
    • inward directed osmotic force in capillaries, created by higher concentration of solute in blood plasma than in interstitial space
  • at the end of capillary nearest to arteriole, hydrostatic force exceeds osmotic force so fluid moves out of capillary into interstitial space
  • venuous end, osmotic force exceeds hydrostatic so fluid lost on the arteriole end gets reclaimed at venuous end of cpillary.
  • but not all interstitial fliud reabsorbed by capillaries

What is the role of the lymphatic system?

  • lymphatic system = branching tubules called lymphatic ducts or vessels
  • lymphatic ducts
    • permeate all tissues
    • eventually join with one another
    • largest lymphatic vessels return excess fliud to major veins entering the heart
  • assuming that total solute concentration in plasma and interstitial fliud must be different enoguh to bring fliud into capillaries via osmosis
  • fliud that leaks out of capillaries must have low OSMOLARITY
  • capiliess must act as filters that retain large prrotines
  • albumin = large and net negative prtoeins that can’t exit capillary
    • keep solute concentration in blood high
    • maintains strong osmotic gradient that brings fluid back to capillaries

How does the heart work?

Carefully read “The human heart” and “the cardiac cycle”

  • pulmonary circulation = lower pressure, to and from lung
  • systemic circulation = to and from body

What are the parts of the human heart?

  • thin walled atrium receives blood
  • thick walled ventricle pumps blood out
  • artioventricular valves seperate atria from ventricles
  • venae cavae (inferior, superior)
  • pulmonary artery
  • blood flows form artium to ventricle to arterty only one way
  • one way valves seperate heart chembers and ffrom blood vessel
  • heart murmur = back flow
  • pulmonary veins

Trace the flow of blood through the chambers

  1. right atrium
  2. right ventricle
  3. lungs
  4. left atrium
  5. left ventricle
  6. body

What are the steps of the cardiac cycle – how do changes in pressure inside heart result in blood flow?

  • systole = contraction phase of atria and ventricles
  • diastole = relaxation
  • cardiac cycle = sequence of contraction, relaxation , one diastole, one systole
  • ventricular systole -> increases pressure in both ventricles, blood to pumonary artery and aorta,
  • systolic blood pressure = measure at peak of ventricular ejection
  • disatolic = low bp

 

electrical acitation of heart

  • pacemaker cells initiate contractions of cardiac muscle cells
  • pacemaker cells located in sinoatrial (SA) node
  • SA node and muslce cells receive inputs from nervous systesm and chemcial messengers
    • to regulate heart rate
      • stregnth of ventricular contraction
      • amoutn fo blood mvoing through cri c varies in repsones to electrical signa dn and hormoones
  • an electrical impulse that stimulates contraction is genereated in SA nodea nd rapidly conducted through right and left atria
  • signal spreads quickly from cell to cell because cardiac muscle form physical and electrical connections to each other  (this is special and unique to cardiac muscle cells)
  • all cardiac muscle cells branch to ocntact other cells
  • intercalated cells =
  • elf
  1. sa node initates signal
  2. sa node signa spread ove ratria. atria contract simulatnaeously and fill ventricles
  3. signal from atria conducted to AV node. AV nod delays and then pas to centricles. delay allow ventricles ot fill
  4. electrical impulse form va transmit through fibres in muscular wall seperated ventricles. both ventricles contract as atria relax.
  5. ventricles realax and cells recoves, restore electrical state prior to contraction

(see fig 8.29)

patterns in blood pressure and blood flow

  • blood p in capillaries drops bc resistance increases. lots of fricton loss. seen in graph as lots of squiggles
  • velocity of blood flow decreases in capillary

How bp and blood flow regulated?

  • arteriole sphincter
  • homeostatic control of bp
    • sensors e.g. baroreceptors – dec in bp
      • cardiac output increases
      • artioles constrict to divert blood
      • veins constrict
    • integrator process info about change
    • effects diminish impactof chage

 

Stuff to remember:

  • if atmos is 45, predicted partial pressure in water surface is 45 mmHg.
  • oxygen concentration is water is lower than concentration in air
  • cross sectional area of vessels increase, velocity of flow also increases. FALSE
  • Left ventricle of heart fills ???????

 

Water and Sugar Transport in Plants

  1. What are the key differences between plant vs. animal circulatory systems?
  2. What are the key concepts of water and sugar transport in plants?
  3. What is the gradient that water moves along? and what direction does water move?
  4. What is water’s potential energy in plants caused by? (two factors?)
  5. Does water moves passively or actively? And what is the force driving water transport?
  6. What is sugar transported? How is water involved in sugar transport?

Continue reading “Water and Sugar Transport in Plants”