Transcript Document

Winter 2004 Course & Contact
Information
Dr. J. Page Lindsey
7/18/2015
Dr. Page Lindsey
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Class Schedule and Office Hours
Time
MONDAY
8-8:55
Bio 202
(755BH)
Bio 202
Bio 202
9:05-10:00
Office
Office
Office
10:1011:05
Bio 331
(795BH)
Bio 331
Bio 331
11:1512:10
TUESDAY
Office
WEDNESDAY
Office
7/18/2015
FRIDAY
Office
Department
Meeting
12:20-1:15
1:25-4:30
THURSDAY
Bio 331 L
(760BH)
Bio 202L (755BH)
Dr. Page Lindsey
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Syllabus for Microbiology
Bio 331
Text (Required)
Brock’s Biology of Microorganisms,
10th Ed. (Madigan et al.); packet of
handout materials (purchase in the
Bookstore)
Lab Manual
Microbiology: Laboratory Theory &
Application (Leboffe & Pierce)
Required Materials
Sharpie Permanent Marker (black or
other dark color); old shirt for a lab
jacket
Contact Information
7/18/2015
e-mail: [email protected]
phone: I do not have a phone in my
office; if you need to call, call the
secretary’s phone (x7446) and she will
leave me a message
Dr. Page Lindsey
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Syllabus for Microbiology
This course has several prerequisites to it. You should have a comfortable background in chemistry, which I
suggest should be at least through one term of Organic Chemistry. You should have had Botany & Zoology
or the equivalent, both for the experience of having structured Biology labs and for being able to make
comparisons between prokaryotes and eukaryotes.
We will examine the three-domain classification of all living things and then will spend a bit of time on the
morphology of the prokaryotic cell. Much of this I will assign as reading and expect that you will do most of
it on your own, since it is very descriptive.
On occasion during the term I will give you papers to read that will be considered part of the lecture
material. These papers will be fair game for questions on exams.
One of these papers will be different as it will be the source of a homework assignment. I will give you a
choice of one of three papers to read (topics are Biofilms, Biological Warfare, and New Antibiotics) and I will
put them on electronic reserve for you to read when we reach an appropriate point in the course. For this
particular paper, I will expect you to read it but I will not hold you responsible for its content on an exam.
However, after you read this paper as background, I want you to go to the library (NOT the Internet/Web!!)
and find a current (within the last 3 years) primary article that concerns your chosen topic and relates to
some degree to the non-primary paper you read on reserve. I will give you a set of questions that I want you
to answer about this paper. Additionally, I will expect you to hand in a clear Xerox of the paper you choose
as part of the homework assignment. This project will be worth 50 points. If you are not familiar with what
constitutes a primary paper, please see me. I don’t want you to select a review paper – it must be a primary
paper that shows details of Procedures, a Results section, and a Discussion of the Results. In other words, it
should be a research paper, not a review or recapitulation of the state-of-the-art situation of a topic.
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(Bio 331) –
We will have three mid-term exams during the term. These will be worth 100 points
each. You may not make up any of these exams, but you can drop your lowest score.
Therefore, there will be a maximum of 200 points possible from hour exams.
EXAM
EXAM DATE
1 (100 pts)
W, February 4, 2004
2 (100 pts)
M, March 1, 2004
3 (100 pts)
F, April 2, 2004
FINAL EXAM (100 pts)
TBA (Check Web Opus for
updates)
The final exam will be given on (check Web Opus). This is an absolute time. I will not allow anyone to take the final
at any other time. If you have a conflict with another final, or if you have more than two finals scheduled for that day,
you must change one of the other finals. This time and date are firm. The final will be worth 100 points and it cannot
be dropped. Everyone must take it; if you miss the final, you will receive an F for the term. There will be some
comprehensive nature to the final in that you will be expected to be facile with the general concepts we have discussed
previously in the term, but I will not ask questions about specific information on the final that is of a comprehensive
nature.
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(Bio 331)In the lab we will be doing from one to several lab exercises each week. Some of these are short and simple,
while others are more complex. The lab schedule is attached to this syllabus. You are responsible for knowing
from week to week which exercise we are doing, and you should read over them before you come to lab. This is
very important – please do it! It will save a lot of explanation time, but even so, there will often be changes or
modifications to the exercises and it will help if you are already familiar with them. As you look at the schedule
of labs, you will notice (in the last column) that most weeks after Week 1 you have lab sheets due. This will be a
standing pattern throughout the term. Complete the sheets that are at the end of your lab manual and turn
them in on or before the next week’s lab meeting. Many people choose not to do these, or put them off until
weeks after they are due. I will be very strict about expecting these to come in on time. They are worth 20
points each week, and if you fail to turn them in on time, I will deduct 5 points for each day they are late. While
20 points may not sound like much, it can mount up. There are 10 exercises for which these sheets are due – a
total of 200 points. Material from the lab may be included on the lecture exams. While I usually will not make a
special point of asking a question about a lab exercise, I will expect you to remember the point of each lab and
to be able to relate that information to material we have in the lecture.
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(Bio 331)There will be one lab report due on an exercise you set up during the term – this exercise is mostly of your
own design and I will provide you with the outline for how you will proceed before Spring Break. This
will be an on-going exercise that will require several weeks to complete. You may actually want to collect
some of the samples that you will use over the Break. The lab report will be due on Monday, April 19; it will
be written by your group (no individual papers), and will be worth100 points. It should be written
according to the specific instructions on the Biology Department web site. If you do not follow these
guidelines, particularly the rules about citation format, no quotations, and appropriate content for the various
sections of the report, you will not receive an outstanding score. Please check with me if you have not ever
written a lab report in a Biology class at FLC before, or if it has been a long time since you have done so.
You must familiarize yourself with the proper format used in Biological Sciences in order to write a good
report. You will need to have at least three primary references for this report, and none of those three
may come from the web. You may have additional references, and these may come from any source, but
be sure that you know how to cite web references if you use them!!!!!!!!!!!!!!!!!!!!!!!!! Information on how
to cite web references properly can be found on the FLC Library web page, under Library 150. See me if
you have difficulty finding this information. You may also ask a librarian how to cite web references
properly.
On Weeks 8&9 you will receive unknown microbes for identification in the lab. There will be one fungus
and two bacteria assigned to you. You will be making morphological examinations, performing stains,
and doing a series of biochemical tests to identify these unknowns. We will discuss this more as we
approach the time for the cultures to be issued. The unknowns are worth 20 points each for a total of 60
points. Partial scores are possible for individual cultures. The two bacterial cultures will be mixed when
they are issued to you, so your first task will be to isolate them.
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(Bio 331) –
Finally, and due on Monday, 3/29/04, you will be required to turn in a
group poster on a particular disease of your choice. Details for the
production and guidelines of this poster are given at the end of this
syllabus. The poster will be worth 100 points. The poster will be
presented orally to the class in lab on 3/29/04).
Total points possible for the term
are 810; grading will be on a
curve.
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Important Information (Bio 331)
· Missed labs cannot be made up.
· I will accept no assignments turned in after the last day of classes (April 23, 2004).
· I expect you to be in class on time and to remain seated during the lecture.
· Please do not bring cell phones to lecture or lab. If you must have a cell phone, turn the ringer off and set it on
vibrator mode. If you must speak on the phone during class, please excuse yourself and talk out in the hall or
someplace outside the classroom or laboratory.
· Eating is not permitted in the lab for obvious reasons. If you are unable to have lunch before you come to lab,
please leave any food/beverage/water bottles outside the lab – you can take a stool out of the lab to use as a table.
If you must eat during the lab, please step out in the hall to do so, and only after washing your hands before
leaving the lab.
· Labs are not open on weekends or in the evenings (after ~ 6 pm on weekdays, or when the custodians lock the
lab).
· The prep room is off-limits to anyone except TA’s or myself. If you need materials that are not available in the
lab, please ask for them.
· Please be very thoughtful and cautious about handling and disposing of contaminated materials such as
glassware, cultures, etc., as the semester proceeds. We will talk extensively about safety and health hazards in the
first lab session. Guidelines for disposal of hazardous materials (contaminated cultures, broken glass, old
cultures, etc.) will be discussed and also will be posted on the ends of the teaching desk in the lab.
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Info About Poster (Bio 331)
For details of the poster project, please
see the guidelines posted on the bulletin
board in the front of the lab (760BH)
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Plants & Human Affairs
Bio 202
Instructor: Dr. Page Lindsey
Office: 751BH
Office Hours: 9:05-10:00, MWF; 10:10-12:00, T; 11:30-12:25, H; Contact Info:
[email protected], 247-7446
Required Materials: Economic Botany – Plants in our World, 3rd Edition, by Simpson &
Ogorzaly; Materials to cook with for a lab of Spices & Herbs; a good hand lens (at least 10x);
a sharp pocket knife or sharp pruning clippers (for obtaining twig samples for your collection)
Optional Materials: A tree guide for the western US – you may find a suitable one at the FLC
Bookstore, at any bookstore downtown, or at www.Amazon.com or
www.BarnesandNoble.com. The Audubon Society Field Guide to North American Trees,
Western Region, is a good one.
This class will fulfill your requirement for a TS1 class in the Natural Environment area. Note
that it cannot be counted as a Biology class. We will examine the many ways that humans
have used plants over the centuries as well as how plants have influenced humans. Some of
this class will be “pure” Botany, as we need to understand a little bit about plant structure and
function to see how these plants have played a role in the history of civilization. Other aspects
of the course will focus on history, economics, culture, and more, and how plants interface
with these disciplines.
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Grading and Assignments: We will have 3 midterm exams worth 100 points each. You
may drop the lowest score of these three exams. We will have a final exam worth 100
points during the week of April 26-30. The final exam schedule has not yet been posted.
I will inform you of the date as soon as it is available. The final exam must be taken by
all students and will be over new material since the previous exam. It cannot be
dropped as your lowest score. Material covered on the exams will be announced in class
about a week prior to the exam date.
We will also have a series of midterm lab quizzes worth 20 points each. None of these
quiz scores can be dropped! There will be a final lab quiz during the last lab meeting of
the term (April 21). It will be worth 50 points and it will be in part comprehensive and
in part new material.
You will be asked to write a short paper on a spice or herb of your choice, and you will
present this paper to the class during the lab period scheduled for that topic. During
that lab, the main focus of the lab will be for you to bring a dish that has been prepared
with the spice or herb that your paper was written about, so that the other students in
the class can sample your cooking. (Note: if you are a horrible cook, you can buy
something made with your herb or spice, or you can have someone else cook for you!).
The paper will be worth 50 points and will require you to have at least two references,
properly cited, and not from the web! Periodicals, books, or other print sources must be
used for your references. This paper will be about two pages long, double spaced. The
very last page of your lab manual has instructions about the paper mechanics. Note that
I want you to do this paper as individuals, not as a group.
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Finally, you will be required to prepare a tree notebook with a minimum of 20 campus trees, to be turned in
during the last lab of the term (April 21). This notebook will be of your own design but it must follow some
guidelines, and these are given at the end of the syllabus. The tree notebook will be worth 250 points.
Preparing Your Tree Notebook: One of the major focuses of this class will be to learn to identify some of the
common trees of the FLC campus and to prepare a winter twig notebook of 20 of those trees. For several labs of
the term we will take campus walks to look at some of the trees that surround us. Usually we will look at three
trees per walk. First and foremost, please come prepared to deal with the weather conditions – wear a warm
jacket and gloves/hat/whatever you need to keep comfortable. The weather will undoubtedly be bad on some of
these walks, but we will do them anyway!
Your notebook will contain 20 tree species, some native to this area and some not. We will learn the scientific
name and common name of each tree, its native habitat, its identifying characters, and uses by humans. Your tree
notebook will consist of a sample twig from each tree that you include. You will be shown in the first lab of the
term how to remove a twig properly so as not to damage the tree. Most twigs can be used directly, but some of the
conifer twigs will need to be pressed. You can press twigs in a large book with a weight on top – usually after
about a week, they are dry and flattened enough that you can mount them on paper.
You should use a sturdy grade paper for the pages in your notebook where you mount the twigs. Each page should
contain the twig, the scientific and common names as well as the acronym for the tree, and any additional
information you care to include. For example, in the past other students have photographed the trees, or even
included other material that they collected (fruits, bark pieces, etc.) that help in the identification.
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The information on each page should be typed and spell-checked. You can type it
directly on each page or you can be artistic and glue the pieces on. The twigs should
be glued on with white glue (e.g., Elmer’s glue) and not any other glue. (Rubber
cement will rub off and glue sticks are not sticky enough).
Each of the 20 entries will be worth 10 points; this score will be based on the
accuracy of the written material and the correct ID of the twig. An additional 50
points will be awarded for neatness, originality, and creativity of the presentation.
Make this something you can be proud of! If you do a messy, last minute job, I will
not award you any of these creativity points. The easiest way to do this is to collect
the twigs each time we go out on a campus walk, and then use tape of some other
method to keep track of their identity while we are on the walk. I would recommend
carrying a small bag or box with you on these walks, as well as a marker, tape, a
small notebook and pencil, and your knife or clippers. Finally, you will need to take
your hand lens with you on each walk so that you can see the microscopic structures
that characterize each twig.
If you have any questions of problems with the notebook, be sure to ask about them
early in the game and not at the last minute. I will not identify these twigs for you
after you collect them – that is your responsibility in putting the notebook together.
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On the lab quizzes, you will be responsible for the information that I provide you
about the trees that we have seen so far on campus walks. You may expect to have
questions about 3-4 trees on each quiz. There is a file on my M drive that you can
access to see information about the tree species that we will observe this term.
However, it may not show the detail that you need to know about all the
identifying characters of each tree. I will explain how to access this file in class.
Each week we will do a different lab exercise. Some of these are observational
and others are experimental. Some are just for fun. Most of these are in your lab
manual, but at least one will be given to you as a handout. Following is a tentative
schedule of the lab exercises we will do this term.
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Midterm Exams
Exam
Date
1
M-2/2/04
2
M-3/1/04
3
F-4/2/04
Opium capsule oozing raw
opium at harvest
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Lab Quizzes
Exam
1
2
3
Final
Date
2/11/04
3/17/04
4/7/04
4/21/04
Indigo dyes pots in China;
harvesting Indigofera
plants for dye in Thailand
Please note that no exams, either lecture or lab, may be made
up. If you miss a lecture exam, that will automatically be the
one you drop. If you miss a lab quiz, you take a zero on that
quiz, but it gets factored into your final percent in the course.
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Lab Schedule
Date
Exercise
1/14
Microscopes/Slide Prep/GPS
1/21
Flowers&Seeds/CampusWalk&GPS (CWGPS)
1/28
Fruits/Seeds/Leaves/CWGPS
2/4
Plants, Nutrition & Society
2/11
Stems, Rhizomes, Tubers & Roots/ CWGPS
2/18
Wood and Secondary Growth/Trees /CWGPS
2/25
Dendrochronology
3/3
Plant Propagation/Plant Pathology /CWGPS
3/10
Quiz/Assignment/Info
(see Key in Exercise 6)
Quiz 1 (20 points)
Quiz 2 (20 points)
SPRING BREAK – NO LAB
3/17
Spices & Herbs
Bring Prepared Foods and Short
Papers for Presentations
3/24
Paper Making
Quiz 3 (20 points)
3/31
Dyes & Dyeing /CWGPS
4/7
Medicinal & Drug Plants
4/14
GPS Map Preparation
Final Lab Exam (Comprehensive) –
50 points
4/21
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Meet in Computer Lab
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Missing Classes and Attendance
Please try to attend all classes and labs. I am not responsible for any classes you miss. If
you miss, you must make arrangements with a friend to get the information for that class.
If you miss a campus tree field trip, there is a web site in my O Drive that you can access
to refer to the information you missed. However, I will warn you that when you borrow
notes or other materials from friends, or if you depend completely on this web site, you
would generally miss information you would record for yourself. Some students take
little to no notes and you may find yourself completely clueless if you borrow notes from
one of these people! Make it a priority to attend class and take your own notes. Please do
not schedule appointments of any kind (doctor, advisor, dentist, etc.) during either lecture
or lab.
You must take the final exam when it is scheduled. Please do not make arrangements to
leave campus in April until you know when your final exams are scheduled. If you have
more than one exam scheduled on the day of our final, you still have to take the final for
this class when it is scheduled.
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