BIOA01H3

Life on Earth: Unifying Principles

University of Toronto Scarborough

A lecture and laboratory course providing an overview of the origins and cellular basis of life, genetics and molecular biology, evolution and the diversity of microorganisms. Note: that both BIOA01H3 and BIOA02H3 must be completed prior to taking any other Biology course.
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Aarthi Ashok, Shelley Brunt, Mark Fitzpatrick

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Biological Sciences
BIOA01H3
Aarthi Ashok, Shelley Brunt, Mark Fitzpatrick

BIOA01H3 Syllabus for Aarthi Ashok, Shelley Brunt, Mark Fitzpatrick — Fall 2018

1
BIO A01H3 F
Life on Earth: Unifying Principles
Fall 2018 - COURSE SYLLABUS
Objectives and Outcomes
The primary goal of BIO A01 is to provide students with the strong foundation needed to
become a successful biologist. During the term you will learn:
1. the fundamentals of evolution, speciation and population genetics, the major principles
of cellular organization and metabolic processes, and the principles of gene action and
inheritance;
2. the essential skills to become an active learner of science;
3. some basic laboratory techniques that are required to pursue your chosen field of
science;
4. some approaches for finding and reading relevant biology research articles;
5. the proper approach to collecting and analyzing data and then communicating the
results using the writing and critical thinking skills presented in labs
Overview
BIO A01 is a lecture and laboratory course designed to encourage students to think broadly and
critically about some major areas of study in Biology (eg. Evolutionary Biology, Cell Biology and
Genetics). BIO A01 consists of 36 lectures (3 x 50 minute lectures per week) and five labs (one
3-hour lab practical every two weeks throughout the term).
There are three modules consisting of 12 lectures per module. The first module will examine
evolution as the framework in modern biology, and topics such as population, genetics,
cladistics and speciation. An appreciation for the diversity of life is emphasized throughout this
course with emphasis on prokaryotes, viruses/prions and protists. The second module of the
course will introduce students to cell structure and then explore the principles of energetics
and cellular metabolism, using respiratory and photosynthetic pathways as two important
examples. The third module will focus on the role of the nucleus in cellular function, cell
proliferation and inheritance and examine processes including DNA synthesis, protein synthesis,
cell division (mitosis, meiosis) and genetic principles.
The schedule and location for these lectures can be found on page 9 of this syllabus. The lab
practicals will be scheduled Mondays, Tuesdays, Wednesdays and Thursdays in both SW237
and SW240 (see the attached schedules on pgs. 9 10 to see when to attend your practical).
2
Course Personnel
There are several key people you should get to know in this course:
Name
Title
How to contact1
Office and
Office Hours2
Dr. Mark
Fitzpatrick
Instructor Module 1
E-mail:
(include Fitzpatrick in subject)
SW558A
Dr. Shelley Brunt
Instructor Module 2
E-mail:
(include Brunt in subject)
SW563A
Dr. Aarthi Ashok
Instructor Module 3
E-mail:
(include Ashok in subject)
SW521D
Karolyn Keir
Lab/Course
Coordinator for BIO
A01
- contact regarding
late enrollment,
missed tests or labs,
marks management
and general advising
as related to the
course
E-mail:
(include Keir in subject)3
SW238
Hours:
TU 2-3pm
TH 2-3pm
Nicole Alber
BIO Help TA
(include Biohelp in subject)
Please see
Quercus
Laboratory TA
TBA in your first lab
1All e-mails must be sent from your University issued e-mail account (@mail.utoronto.ca)
2All Course Personnel are only available in their offices during stated office hours. Office hours
for course instructors will be posted on Quercus.
3Karolyn Keir will only respond to e-mails during regular business hours (Mon Fri, 9am 5pm)
3
Communication within BIO A01
Quercus (q.utoronto.ca)
The main source of information for BIO A01 is the Quercus course page. Information such as
contact information and office hours, lecture outlines, videos and notes, assignment
instructions, test dates and locations, and grades will be posted on Quercus throughout the
semester. Information related to your lab practical will also be posted here. Please check the
BIO A01 Quercus page frequently and set notifications so you do not miss any important
information.
E-mail
To help your professors stay organized and answer your e-mails more quickly and effectively,
one central e-mail address serves BIO A01. To communicate with your Instructors and the
Course Coordinator, please e-mail:
Include the name of the person you wish to e-mail, and your student number in the subject line
of the e-mail to help direct it. If there is no name listed in the subject line, your e-mail will not
be answered.
Please do not use professors’ e-mail addresses for BIO A01 communication!
Remember to always contact the Instructors, Course Coordinator and TAs using your UofT
issued e-mail address. E-mails from other addresses (@gmail, @hotmail, @yahoo, etc.) will not
be answered.
Log onto Quercus by clicking the “Quercus” link under Quick Links on the UTSC
homepage and using your UTORid and password.
4
Required course materials:
1) Textbook
The complete textbook package can be purchased at the UTSC Bookstore (located above Tim Horton’s in
the Bladen Wing). The purchase of a textbook is required for BIO A01.
The textbook for BIO A01 is:
Morris J, Hartl D, Knoll A, Lue R, Michael M. 2016. Biology How Life Works (2nd ed.) W.H.
Freeman & Company: Macmillan Education Imprint. 1096pp.
2) LaunchPad Access (online learning tool)
LaunchPad is an additional, online learning tool to help you master the material presented in BIO A01, as
well as complete the online assessments associated with each module. You can purchase and access
LaunchPad a few different ways:
Packaged at no extra cost with the loose-leaf text (approx. $138.00) or hard-cover text (approx.
$205.35) purchased through the UTSC Bookstore
As a standalone item that includes the e-text for $88.99. This can either be purchased through
the UTSC Bookstore website or directly through the MacMillan website
(http://www.macmillanlearning.com/catalog)
For technical support, please call: 18009366899
3) Lab Manual
The lab manual is a separate publication that is required for all lab practicals. It is titled:
Keir K, Gladilina E, Armstrong C. 2018. BIO A01 Life on Earth: Unifying Principles Lab Manual
for Fall 2018. Toronto, Ontario.
The lab manual is for sale at the UTSC Bookstore. Photocopies of old, now out-of-date manuals are NOT
ACCEPTABLE. Reports at the end of each lab for 2018 are unique to this version of the manual and
originals are required to receive credit for your practicals. Copies of reports will not be provided by
your TA!
Students must have their own copy of the appropriate lab information when they come to their
practical. It is the responsibility of each student to read each lab in advance and bring the manual to
each of their scheduled practicals.
4) Lab Coat and Protective Eyewear
Lab coats and protective eyewear are required for all biology labs at UTSC. Lab coats and protective
eyewear are sold in various locations on campus (BioSA, EPSA, Bookstore). Disposable gloves and other
supplies will be provided in the labs as needed. Students should bring pencils, pens, rulers and
calculators to all labs. Always check your lab manual for any special requirements for each of your labs.
5
Course Evaluation
The content in BIO A01 will be delivered through lectures and labs. Tests will not be cumulative
and use a multiplechoice question format. The time/date and location for each module test
will be posted on the BIO A01 Quercus webpage.
The final grade in BIO A01 will be determined as follows:
Laboratory component of final grade = 31% (see breakdown below)
Labs: 6 online quizzes x 0.5% = 3%
There will 6 online laboratory quizzes delivered through Quercus. You are responsible for
completing each quiz by the assigned due date. No make-ups are possible. The first and second
quiz, which will be focused on Lab 1 (field trip) and Lab 2 respectively, must be completed by
Friday, September 21 at 12:00pm (noon). The other four quizzes are to be completed before
each of your scheduled labs. You must attend the associated lab to receive credit for the quiz.
Quiz marks will revert to zero if you are absent from the associated lab.
6 lab reports x 2.5% = 15%
With the exception of the Scavenger Hunt (Lab 1), which is completed outside of the lab and
submitted online through Quercus, Lab Reports (2-6) will be completed during scheduled lab
periods and submitted to Lab TA before you leave the lab. It is a prudent use of time to
complete as much of these reports as possible before your scheduled lab period.
Laboratory Assignment = 4%
This will be made available on Quercus before the start of Lab 2 and is due at the start of your
Lab 3. No late assignments will be accepted.
Formal Lab Report (FLR) = 9%
Submitted online through Quercus by 12:00pm (noon) on Friday, October 26, 2018.
1% of the FLR mark will come from the successful completion of two online modules (details will
be posted on Quercus).
Lecture component of final grade = 69% (see breakdown below)
Test for Module 1 = 20%
Online assessments for Module 1 = 3%
Test for Module 2 = 20%
Online assessments for Module 2 = 3%
Test for Module 3 = 20%
(during final exam period)
Online assessments for Module 3 = 3%
6
Statement regarding use of Turnitin
In BIO A01, we will be using Turnitin (through Quercus) for the submission of the FLR. Failure to
submit or failure to submit a Turnitin readable document will result in a grade of 0. You should
be aware of the following policy for the use of Turnitin at the University of Toronto:
“Normally, students will be required to submit their course essays to Turnitin.com for a review of textual
similarity and detection of possible plagiarism. In doing so, students will allow their reports to be
included as source documents in the Turnitin.com reference database, where they will be used solely for
the purpose of detecting plagiarism. The terms that apply to the University’s use of the Turnitin.com
service are described on the Turnitin.com website.”
Course Content
A. Lecture topics (tentative; may change over course)
Module 1: Evolution
Lecture topics include:
- Population biology
- Microevolution
- Tree of Life: Classification and Phylogeny
- Evo Devo
- Tree of Life: Protists
Module 2: Cell Biology and Metabolism
- Tree of Life: Prokaryotes
- Cells
- Respiration
- Photosynthesis
Module 3: Gene Action and Inheritance
- DNA: the stuff of heredity
- Peas, Pedigrees and Probability
- Transcription and Translation
- Tree of Life: Viruses & Prions
B. Lab Topics
Lab 1: Field trip + scavenger hunt (completed between Sept 5th 15th; details in manual)
Lab 2: Introduction to Phylogenetics
Lab 3: Effect of Light Intensity on Photosynthesis Collection of data for FLR
Lab 4: Introduction to Microscopy using Algae
Lab 5 and 6: Using a Single Nucleotide Polymorphism to Predict Bitter Tasting Ability &
Investigating Mendelian Inheritance
7
Facilitated Study Groups (FSGs)
BIO A01 is supported by an independently-run facilitated study group. These weekly study
sessions are open to all BIO A01 students. Attendance is voluntary. If you have questions, visit
the FSG website at: http://ctl.utsc.utoronto.ca/home/fsg
Please note: All materials used in FSG sessions (handouts, questions etc.) are created by the FSG
moderators and not by the course instructors. Please ensure that you contact the FSG moderators
about any questions related to these materials. Please also note that while the questions used in the
FSG sessions are very useful to promote your understanding of course concepts, they may NOT be in
the same format that will be used for the term tests in BIOA01.
Fall 2018 Important Dates
Sept. 3
Labour Day University closed
Sept. 4
Classes begin in F and Y courses
Sept. 10
Last day for students writing deferred examinations in December to
adjust their current course load
Sept. 17
Last day to add F and Y courses
Oct. 8
Thanksgiving Day University closed
Oct. 6 12
Reading Week (Note: Classes may be held on other campuses)
Nov. 19
Last day to drop F courses without academic penalty and have them
removed from the transcript
Last day to add or remove the CR/NCR mode of assessment (on
ACORN) for an F section course (for details go to
www.utsc.utoronto.ca/registrar)
Dec. 3
Last day of classes and last day for submission of term assignments
in F courses
Last day to drop UTSC F courses on eService and have them remain
on the transcript with a grade of LWD indicating withdrawal without
academic penalty. After this date grades are recorded on transcripts
whether course work is completed or not (with a ‘0’ assigned for
incomplete work) and they are calculated into GPAs (Note: see
www.utsc.utoronto.ca/registrar for LWD dates for courses on other
campuses)
Dec. 4 6
Study break
Dec. 7 22
Final examinations in F courses
Dec. 24 Jan. 4
December break University closed
8
LECTURE INFORMATION
DATE
TIME
LOCATION
LEC01
Tuesday
11 12
IC 130
Thursday
11 12
IC 130
Friday
10 11
AC 223
LEC02
Tuesday
1 2
AC 223
Thursday
1 2
AC 223
Friday
11 12
AC 223
LEC60
Online lecture
LAB PRACTICAL SCHEDULE (date/time and locations on pg. 9)
*NOTE: Lab 1 is the field trip/scavenger hunt and will be available Sept 4th 21st and does not
require you to attend your regular practical until Lab 2.
Week
Lab #
Practical
Dates (2018)
1
2
Odd numbered practicals
(eg. P0001, P0003,
P0005….)
Sept 10th 13th
2
2
Even numbered practicals
(eg. P0002, P0004,
P0006….)
Sept 17th 21st
1
3
Odd numbered practicals
Sept 24th 28th
2
3
Even numbered practicals
Oct 1st 5th
READING WEEK NO CLASSES
Oct 8th 12th
1
4
Odd numbered practicals
Oct 15th 19th
2
4
Even numbered practicals
Oct 22nd 26th
1
5
Odd numbered practicals
Oct 29th Nov 2nd
2
5
Even numbered practicals
Nov 5th 9th
1
6
Odd numbered practicals
Nov 12th 16th
2
6
Even numbered practicals
Nov 19th 23rd
NOTE: Practicals 0037 to 0044 run on Mondays; see pg. 9 for more details
9
PRACTICAL
Week
Day
Time
Lab
P0001
1
Tuesday
9am to 12pm
SW 237
P0002
2
Tuesday
9am to 12pm
SW 237
P0003
1
Tuesday
9am to 12pm
SW 240
P0004
2
Tuesday
9am to 12pm
SW 240
P0005
1
Tuesday
9am to 12pm
SW 242
P0006
2
Tuesday
9am to 12pm
SW 242
P0007
1
Tuesday
12pm to 3pm
SW 237
P0008
2
Tuesday
12pm to 3pm
SW 237
P0009
1
Tuesday
12pm to 3pm
SW 240
P0010
2
Tuesday
12pm to 3pm
SW 240
P0011
1
Tuesday
12pm to 3pm
SW 242
P0012
2
Tuesday
12pm to 3pm
SW 242
P0013
1
Tuesday
3pm to 6pm
SW 237
P0014
2
Tuesday
3pm to 6pm
SW 237
P0015
1
Tuesday
3pm to 6pm
SW 240
P0016
2
Tuesday
3pm to 6pm
SW 240
P0017
1
Wednesday
10am to 1pm
SW 237
P0018
2
Wednesday
10am to 1pm
SW 237
P0019
1
Wednesday
10am to 1pm
SW 240
P0020
2
Wednesday
10am to 1pm
SW 240
P0021
1
Wednesday
1pm to 4pm
SW 237
P0022
2
Wednesday
1pm to 4pm
SW 237
P0023
1
Wednesday
1pm to 4pm
SW 240
P0024
2
Wednesday
1pm to 4pm
SW 240
P0025
1
Thursday
9am to 12pm
SW 237
P0026
2
Thursday
9am to 12pm
SW 237
P0027
1
Thursday
9am to 12pm
SW 240
P0028
2
Thursday
9am to 12pm
SW 240
P0029
1
Thursday
12pm to 3pm
SW 237
P0030
2
Thursday
12pm to 3pm
SW 237
P0031
1
Thursday
12pm to 3pm
SW 240
P0032
2
Thursday
12pm to 3pm
SW 240
P0033
1
Thursday
3pm to 6pm
SW 237
P0034
2
Thursday
3pm to 6pm
SW 237
P0035
1
Thursday
3pm to 6pm
SW 240
P0036
2
Thursday
3pm to 6pm
SW 240
P0037
1
Monday
10am to 1pm
SW-237
P0038
2
Monday
10am to 1pm
SW-237
P0039
1
Monday
10am to 1pm
SW-240
P0040
2
Monday
10am to 1pm
SW-240
P0041
1
Monday
1pm to 4pm
SW-237
P0042
2
Monday
1pm to 4pm
SW-237
P0043
1
Monday
1pm to 4pm
SW-240
P0044
2
Monday
1pm to 4pm
SW-240
10
Course Regulations
Lectures
To get maximum benefit from the lectures in this course, students are advised to:
read the relevant sections in your textbook before the lecture (see lecture
schedule). Do not take extensive notes or memorize the material at this stage
just read and become familiar with the terms and concepts to be covered
download posted lecture material from Quercus before each lecture
attend and actively engage during all lectures
during lectures, take your own notes with the aim of understanding the main
concepts covered
re-read the relevant sections in your textbook as needed after lecture and create
your own study notes; review your notes frequently
arrange to see the Instructor during scheduled office hours or by appointment if
having difficulties understanding material covered in lectures
Attendance in Labs
Attendance in the labs is required to get credit for that lab and any associated work. You must
arrive on time! The lab door will close at 20 minutes after the hour. If you arrive late and the
door is closed, you will have missed the introductory information and will not be permitted to
participate in the lab. If you are late or miss your lab entirely, you may discuss your situation
with the Course Coordinator, Karolyn Keir.
There will be no make-up labs in BIOA01.
Provided you have valid documentation, you may miss one lab practical without academic
penalty during the course of the term. For subsequent missed labs, you will be assigned a grade
of zero for all associated work.
Students who attend lab practicals that they are not registered in will be asked to leave the lab
immediately and will be assigned a grade of zero for all associated work. You must attend the
practical that you are registered in!
You will not receive credit for online quizzes, nor be allowed to submit lab reports for labs that
you have not attended. Late formal lab reports will have a late penalty automatically applied
(10% of the mark per day including weekends); work will not be accepted if more than 5 days
late. Times and dates to hand in late material will be posted on Quercus; assignments will not
be accepted on either Saturdays or Sundays.
11
Procedure for missed labs and tests
In order to be eligible for consideration for a missed term test or lab work, students must
provide a valid documented reason to the Course Coordinator.
For missed labs and lab assignments/FLRS:
***You must contact the Course Coordinator before the end of your scheduled lab to
be eligible for accommodation. Please include a scanned copy of your self-declaration
form with this email or indicate when you plan to submit this form. Once you are well
enough to return to your academic duties, you must drop off the hard copy of this
form by your next lab to the Course Coordinator. Please remember that you are only
allowed to miss one lab practical with valid documentation during the course of the
term. ***
If you are ill during the term, and this illness influences your ability to attend your lab or
meet a deadline for submission of a term assignment, you can submit a Self-Declaration of
Student Illness form, indicating the days in which you were ill. This form is meant to take the
place of the more typical medical form, and is available on the department’s website
www.utsc.utoronto.ca/biosci.
Please note the following aspects related to this Self-Declaration of Student Illness form:
1. Similar to the submission of a medical form, YOU ARE RESPONSIBLE for contacting the
Course Coordinator to make arrangements for an accommodation for your absence.
2. You may use the Self-Declaration of Student Illness form ONLY for lab absences or term
assignments. For any term exams in this course you will need to submit a Verification of
Student Illness form (See “For Missed Term Tests”). For the final exam you will need to
follow the typical procedures for petitioning to write a deferred exam.
3. You may use the Self-Declaration of Student Illness form up to two times in this course.
If you require an additional accommodation for a term assignment you must then use
the standard Verification of Student Illness form. However, you may only be exempt
from one lab.
4. Submitting a false Self-Declaration of Student Illness form constitutes academic
misconduct, and could be subject to sanctions under the Code of Behaviour on
Academic Matters.
Please submit any Self-Declaration of Student Illness forms to the Course Coordinator as
soon as possible.
12
For missed term tests:
*** You must contact the Course Coordinator within 72 hours of the end of your
scheduled term test to be eligible to write a make-up term test***
Please submit a completed University of Toronto Verification of Illness or Injury Form.
Form can be found here:
http://www.utsc.utoronto.ca/registrar/verification-illlness-or-injury
The date/time of the original test that was missed must be clearly indicated as well as a
clear statement of the medical issue.
If you cannot attend Friday evening or Saturday midterm tests for religious reasons,
please notify the Course Coordinator in writing by e-mail within one week of the
announced midterm test date; an alternative time will be presented if approved by
the Instructor.
For missed tests during the final exam period/final exams:
Students must contact the Registrar’s office (www.utsc.utoronto.ca/registrar/deferred-
exams) and follow the procedures outlined in order to arrange to write a Deferred Final
Exam (DFE). The DFE will be scheduled during the Winter 2018 Exam Period. Please note
that the format of the DFE may differ from the original while covering the same content.
13
Important UTSC Policies
UTSC is dedicated to fostering an academic community in which the learning and scholarship of
every member may flourish, with vigilant protection for individual human rights and a resolute
commitment to the principles of equal opportunity, equity and justice.
1) Information on Academic Integrity
Academic integrity is essential to the pursuit of learning and scholarship in a University, and to
ensure that a degree from the University of Toronto is a strong signal of each student’s
individual academic achievement. As a result, the University treats cases of plagiarism very
seriously. The University of Toronto’s Code of Behaviour on Academic Matters outlines
behavior that constitutes academic dishonesty and the process for addressing such offenses
(see http://www.governingcouncil.utoronto.ca/policies/resourcesforstudents.html).
2) Information Regarding AccessAbility Services at UTSC
Students with diverse learning styles and needs are welcome in this course. In particular, if you
have a disability/health consideration that may require accommodations, please feel free to
approach the instructor in BIO A01 and/or the AccessAbility Services Office (Room SW302) as
soon as possible. Please note that all inquiries are confidential. You can contact AccessAbility
Services at 416-287-7560, by e-mailing [email protected] or visiting their website
(www.utsc.utoronto.ca/ability).
3) Information on Religious Observances
It is policy at UTSC to provide special consideration for recognized holy days which may be
observed by our students. Though not all holy days require students to be absent from school,
accommodations may still be necessary in some cases. As a student, it is your responsibility to
check the due dates for all course work and scheduled dates for tests/exams on a regular basis.
Inform the Course Coordinator of any potential conflicts at least 7 days prior to the date of the
test/assignment. Failure to do so may result in special consideration not being granted
(documentation may be required).
4) Procedures Regarding Final Marks
The final mark in BIO A01 is based on term work; the evaluation breakdown is given on page 5.
After the final exam, marks are calculated and submitted to the Department for review. Once
approved, the final mark for each student in the course will be released on ROSI/ACORN.
Final marks are not negotiable and instructors are not permitted to discuss final marks with
students. If students have concerns about their final mark, they should consult the proper
procedures to be followed as outlined by the Registrar’s office:
https://www.utsc.utoronto.ca/registrar/petitions
Once final marks are posted, it is an academic offense to ask for your mark to be changed
(SEE Academic Handbook).

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