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Syllabus- Population Genetics, BIOL 254, 4 credits

Summer 2016, May 23-June 17, Fully Online

tentative March 28, 2016

INSTRUCTOR INTRODUCTION
Dr. Lori Stevens, Professor

Dr. Silvia Justi, Postdoctoral Fellow

Marsh  Life  Science  321A;  656-­‐0445;  lori.stevens@uvm.edu  

Marsh  Life  Science  ;  Silvia.justi@uvm.edu  

Raquel Lima, Judith Keller Graduate Laboratory Instructors
Marsh  Life  Science  321;  raquel.lima@uvm.edu,  jikeller@uvm.edu  

Our  goal  is  to  reply  to  emails/questions  within  24  hours  

COURSE DESCRIPTION
Summary and Goals
This  courses  uses  online  presentations,  analysis  of  biological  data,  readings  of  the  primary  literature  and  computer  simulations  to  
examine  how  population  genetic  data  is  collected,  analyzed,  presented,  modeled  and  simulated,  used  in  interdisciplinary  
applications  and  can  be  used  to  address  societal  problems.    

Learning Objectives
The  course  will  develop  the  following  core  competencies  identified  by  the  National  Academy  of  Science  Vision  and  Change  in  
Undergraduate  Biology  Education  Report:  
Ability  to  apply  the  process  of  science  
• Evaluation  of  experimental  evidence  
Ability  to  use  quantitative  reasoning    
• Apply  quantitative  analysis  to  interpret  biological  data,  Develop  and  interpret  graphs  
Ability  to  use  modeling  and  simulation  
• Computational  modeling  of  dynamic  systems,  Incorporating  stochasticity  into  biological  models  
Ability  to  tap  into  the  interdisciplinary  nature  of  science  
• Apply  concepts  from  other  sciences  (computer  science,  statistics)  to  interpret  biological  phenomena  
Ability  to  communicate  and  collaborate  with  other  disciplines  
• Scientific  writing,  Explaining  scientific  concepts  to  different  audiences,  Cross-­‐cultural  awareness  
Ability  to  understand  the  relationship  between  science  and  society  
• Evaluating  the  relevance  of  social  contexts  to  biological  problems,  Developing  biological  applications  to  solve  societal  
problems,  Evaluating  ethical  implications  of  biological  research  

MATERIALS
Course Materials Release Day: Monday
Each  module  of  this  course  begins  on  a  Monday  and  ends  on  a  Friday.  This  is  our  “online  week”.  On  Monday  mornings,  you  will  see  
that  the  online  materials  for  that  particular  module  are  available.  These  new  modules  will  be  visible  on  the  Weekly  Modules  page  of  
the  BIOL  254,  Population  Genetics,  course  in  Blackboard.  Each  Monday  morning  when  a  new  module  opens,  I  will  always  send  out   an  
email  announcement  with  a  recap  of  the  previous  week  and  a  kickoff  to  our  new  week.  

Announcements:
The  first  page  that  you  see  when  you  log  into  this  course  each  day  is  the  announcements  (home)  page.  It  is  important  to  read  the  
announcements  each  time  you  log  in  for  any  updates,  reminders  or  other  general  announcements  I  post.  Each  time  I  post  an  
announcement,  you  will  also  receive  it  in  an  email  to  your  UVM  email  account.  

Required Textbook
Nielsen  &  Slatkin,  2013.  An  introduction  to  population  genetics  theory  and  applications.  Sinauer.  ISBN:  978-­‐1-­‐60535-­‐153-­‐7  
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Required Software
Make  sure  you  are  using  a  supported  browser  to  access  Blackboard.  Here  is  a  link  to  the  supported  browser  list.  
This  course  uses  resources  in  different  formats.  Please  be  sure  that  you  can:  
• Open  a  PDF  document  
• Watch  a  YouTube  video  
• Use  excel  or  some  other  spreadsheet  program  
• If  using  an  Mac  computer  be  sure  you  can  install  and  use  wineskin  and  wine  to  facilitate  using  PC  software    
Acrobat  Reader:  verify  you  can  view  PDF  documents  by  opening  and  reading  this  article.  If  necessary,  download  acrobat  reader.  
YouTube:  verify  that  you  can  watch  YouTube  videos  from  your  computer  by  viewing  the  video,  Chagas  Disease:  A  Silent  Emergency.  
Mac  Users:  Use  this  document  to  download  and  install  Wine,  Wineskin,  DnaSP  and  Arlequin.  Please  install  these  now  so  you  can  use  
them  when  you  need  them.  

Technical Help:
If  you  need  immediate  assistance  with  Blackboard  click  on  the  HELP  tab  at  the  top  of  the  Blackboard  page  to  see  numerous  ways  to  
get  help.  If  you  have  a  question  about  how  something  in  Bb  works,  go  to  the  Discussion  Board,  and  post  to  "Technical  Support."  
There  is  a  12-­‐24  hour  response  timeframe.  Also,  please  feel  free  to  contact  any  of  us  with  any  questions  or  assistance  you  may  need.  

Netiquette
Network  Etiquette  refers  to  appropriate  behavior  for  interacting  online.  The  golden  rule  is  essentially  to  treat  people  as  you  want  to  
be  treated.  Please  be  polite  and  considerate.  Think  about  whether  your  comment  could  cause  hurt  feelings.  Be  careful  about  how  
your  words  can  come  across  because  misunderstandings  can  be  common  online.  Feel  free  to  use  emoticons  to  show  your  tone.  

Course Schedule:
See  the  Course  Schedule  link  in  the  course  menu.    

ASSIGNMENTS AND ASSESSMENT
Grading Criteria
Grades  for  all  assignments  will  be  posted  to  blackboard.  
Grading:   EXAM  I  (June  3,  Friday)  
100  pts  
 
EXAM  II  (June  17,  Friday)  
100  pts  
 
Discussion  Forum  
100  pts  
 
Blogs  (Due  every  Monday  and  Tuesday)  
 200  pts  
 
Laboratory  exercise:  data  analysis  (Due  every  Wednesday  and  Thursday)  
200  pts  
Exams  will  cover  material  presented  in  the  lecture  pdfs  and  readings.    A  detailed  study  guide  will  be  provided  for  each  module.  
Exams  will  be  2  hours  long  and  will  need  to  scheduled  through  ProctorU.  
Since  this  is  an  online  course,  one  of  the  only  ways  that  I  know  you  are  ‘out  there’  is  by  your  regular  participation  and  posting  on  the  
discussion  boards,  blogs    and  completion  of  assignments.  This  is  how  I  will  take  “attendance”  and  get  a  sense  of  your  participation.  

Communication and Participation
In  this  online  course,  there  are  three  means  of  communication  that  we  will  use:  
• Discussion  Forums  
• Announcements  (will  be  posted  by  me)  
• Blogs  

Discussion Forum:

We  will  use  the  Discussion  Forum  frequently  in  this  course  because  it  is  an  effective  resource  for  dialogue.  By  posting  materials  and  
questions,  the  entire  class  benefits  by  information  being  exchanged.  If  one  person  asks  a  question,  others  often  have  the  same  
question.  To  experience  of  how  powerful  discussion  forums  can  be,  after  (or  before)  posting  your  initial  comments  for  each  module,  
it  is  expected  that  you  respond  to  two  of  your  classmates  discussion  posts.  When  replying,  choose  a  post  that  offers  a  different  
perspective  than  yours  and  ask  a  question,  build  on  their  observation,  or  extend  an  idea.  We  encourage  half-­‐baked  ideas.  ;-­‐)  
Ideally  our  discussions  will  take  place  throughout  each  module.  The  due  dates  on  the  Course  Schedule  for  the  module  
discussions  are  general  guidelines.  If  you  finish  the  readings  or  assignments  early,  feel  free  to  post  to  the  discussion  forums.  Most  of  
the  discussions  will  take  place  on  the  posted  days  since  you  will  have  done  the  readings  and  assignments  and  be  ready  to  share  your  
comments,  ideas,  etc..  This  ‘rhythm’  and  timing  is  critical  in  an  online  course.  The  trick  is  to  get  discussion  going  earlier  than  later,  
while  still  allowing  ample  time  to  do  the  assigned  work,  but  not  waiting  too  long  so  that  there  isn’t  quality  time  for  discussion.  
If  Discussion  Forums  are  new  to  you,  the  Text  tutorial  or  Video  tutorial  may  be  helpful.  
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Blog:
We  will  make  use  of  the  blog  tool  in  this  course.  You  will  have  your  own  individual  blog  space  to  complete  some  of  the  assignments.  
An  advantage  of  the  blog  in  that  at  the  end  of  the  course  you  will  have  a  compilation  of  your  completed  assignments  all  in  one  place.  
If  the  Blog  tool  is  new  to  you,  the  following  Text  tutorial  or  Video  tutorial  may  be  helpful.  

STUDENT EXPECTATIONS AND RESPONSIBILITIES
Values and Policies
 
Promoting  Health  &  Safety:      
The  University  of  Vermont's  number  one  priority  is  to  support  a  healthy  and  safe  community:    
Center  for  Health  and  Wellbeing    http://www.uvm.edu/~chwb/  
Counseling  &  Psychiatry  Services  (CAPS)    Phone:  (802)  656-­‐3340  
If  you  are  concerned  about  a  UVM  community  member  or  a  specific  event,  we  encourage  you  to  contact  the  Dean  of  Students  
Office  (802-­‐656-­‐3380).  You  can  remain  anonymous  and  report  your  concerns  online    http://www.uvm.edu/~dos/  
 
Inclusiveness  and  Universal  Design  
Student  Learning  Accommodations  Statement  
In  keeping  with  University  policy,  any  student  with  a  documented  disability  interested  in  utilizing  accommodations  should  contact  
ACCESS,  the  office  of  Disability  Services  on  campus.  ACCESS  works  with  students  to  create  reasonable  and  appropriate  
accommodations  via  an  accommodation  letter  to  their  professors  as  early  as  possible  each  semester.  
Contact  ACCESS:  A170  Living/Learning  Center  -­‐  802-­‐656-­‐7753  -­‐  access@uvm.edu.  
ACCESS  Office  
Policy  on  Disability  Certification  and  Student  Support  
 
• Religious  Holiday  Policy  Statement:  Students  have  the  right  to  practice  the  religion  of  their  choice.  If  you  need  to  miss  class  to  
observe  a  religious  holiday,  please  submit  the  dates  of  your  absence  to  me  in  writing  by  the  end  of  the  second  full  week  of  
classes.  You  will  be  permitted  to  make  up  work  within  a  mutually  agreed-­‐upon  time.  Student  Responsibilities  and  Rights  
• Academic  Integrity:  This  policy  addresses  plagiarism,  fabrication,  collusion,  and  cheating.  
• Code  of  Student  Rights  and  Responsibilities:  www.uvm.edu/~uvmppg/ppg/student/studentcode.pdf  
• Grading  Policies:  For  information  on  grading  and  GPA  calculation,  go  to  and  click  on  Policies  for  an  A-­‐Z  listing.  
• Grading  Appeals  Procedures  are  found  here.  
• FERPA  Rights  Disclosure:  The  purpose  of  this  policy  is  to  communicate  the  rights  of  students  regarding  access  to,  and  privacy  of  
their  student  educational  records  as  provided  for  in  the  Family  Educational  Rights  and  Privacy  Act  (FERPA)  of  1974.  

Congratulations!
You  have  reached  the  end  of  the  Course  Syllabus.  At  this  point,  I  hope  that  you  have  a  good  understanding  of  what  this  course  is  
about  and  the  various  activities  assigned  throughout  the  course.  If  you  have  any  further  questions  at  this  time,  do  not  hesitate  to  
post  them  onto  the  discussion  Forum.  Please  remember  that  there  are  no  silly  questions!  I  truly  believe  this.  If,  at  any  time,  you  have  
a  problem,  or  question  or  you  are  just  stuck,  please  post  it  to  the  discussion  Forum,  or  email  me  or  call  me.    
 
Without  further  ado,  let's  begin.  
 

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