Difference between revisions of "Systematics Seminar"

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This is the home page of the UConn EEB department's Systematics Seminar. This is a graduate seminar devoted to issues of interest to graduate students and faculty who make up the systematics program at the University of Connecticut.  
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This is the home page of the UConn EEB department's Co-evolution Seminar, taking the place of the Systematics Seminar this semester (EEB 6486). This is a graduate seminar devoted to issues of interest to graduate students and faculty who make up the systematics program at the University of Connecticut.  
  
 
[[Systematics Listserv|Click here for information about joining and using the Systematics email list]]
 
[[Systematics Listserv|Click here for information about joining and using the Systematics email list]]
  
 
== Meeting time and place ==
 
== Meeting time and place ==
We are meeting this semester in the '''Bamford Room (TLS 171) Fridays from 2-3pm'''. Let's try to get started on time, as another group is meeting in the Bamford Room starting at 3pm on Fridays.
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For the Spring 2015 semester, we are meeting in the '''Bamford Room (TLS 171B) Day/time TBD'''
  
== Theme for Spring Semester 2008 ==
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=== Topics ===
The theme this semester is '''Tree Thinking'''. David Baum (Univ. Wisconsin, Madison) is writing a book on Tree Thinking and has agreed to let us read the chapters he has written in return for some constructive criticism. Baum's book will be supplemented with some thought-provoking and heated-debate-generating papers on subjects such as these:
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This seminar will be split between class meetings that emphasize phylogenetic underpinnings, tree comparisons, and reconciliation methods, with those focused on the evolutionary processes underlying co-evolutionary phenomena (as well as the forces and circumstances that, more often than not, prevent it from occurring). And while parasites will figure large in our readings and discussions, we will also explore insect-plant co-evolution, endosymbionts and other mutualisms, mimicry, and others.  
* can you ever say that a clade is basal?
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* do non-uniform clade priors make sense?
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* what can and can't fossils say about node age
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* when gene trees and species trees are both right, but different
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* the signature of an adaptive radiation
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Some suggested papers are listed below the schedule in the section entitled [[#Some possibilities|Some possibilities]].
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== Schedule for Spring Semester 2008 ==
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=== Tuesday, 20 January 2015 ===
'''Note: the papers linked here require a user name and password to access.''' If you have forgotten the user name and/or password, contact [mailto:paul.lewis@uconn.edu Paul Lewis]. If you want to upload a PDF file for an upcoming discussion, use the [http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/upload.html Systematics Seminar PDF upload form]. Uploading PDFs requires the same user name and password as viewing PDFs.
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At this meeting we will discuss possible themes for this semester's seminar, and determine the meeting time
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<br>
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=== Tuesday, 27 January 2015 ===
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Futuyma%20and%20Slatkin%201983.pdf}}Futuyma and Slatkin, 1983. Coevolution.
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Janzen%201980.pdf}}Janzen, 1980. What is coevolution?
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Ehrlich%20and%20Raven%201964.pdf}}Ehrlich and Raven, 1964. Butterflies and Plants: A Study in Coevolution.
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<!--
  
=== Tuesday, January 22, 2008: Basal clades ===
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=== Monday, 8 September 2014 ===
Discussion leader: Paul Lewis
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Two of our Tuesday time slots this semester will be taken over by departmental seminars, so rather than waste the first time slot with an organizational meeting, let's get right into things with a consideration of the meaning of the word ''basal''.
 
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Crisp_Cook_2005_TREE_20_122-128.pdf}} '''Crisp, M. D., and L. G. Cook'''. 2005. Do early branching lineages signify ancestral traits? TREE 20(3):105-149.
 
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Krell_Cranston_2004_SystEntomol_29_279-281.pdf}} '''Krell, F.-T., and P. S. Cranston'''. 2004. Which side of the tree is more basal? Systematic Entomology 29:279-281.
 
  
=== Friday, February 1, 2008 ===
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=== Monday, 15 September 2014 ===
Discussion leader: Frank Smith
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/deQueiroz_2007_SystBiol_56_956-974.pdf}} '''de Queiroz, K.''' 2007. Toward an integrated system of clade names. Syst. Biol. 56:956-974.
 
  
In this paper, Kevin de Queiroz considers how to define names for clades, and discusses tree terms such as ''crown group'', ''stem lineage'', etc.
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=== Monday, 22 September 2014 ===
  
=== Friday, February 8, 2008 ===
 
Discussion leader: Karolina Fucikova
 
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Donoghue_Benton_2007_TREE_22_389-440.pdf}} '''Donoghue, P. C. J., and M. J. Benton'''. 2007. Rocks and clocks: calibrating the Tree of Life using fossils and molecules. TREE 22:424-431.
 
  
=== Friday, February 15, 2008 ===
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=== Monday, 29 September 2014 ===
Discussion leader: Yu(Daniel) Fan
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Velasco_2007_MPE_45_748-749.pdf}} '''Velasco, J. D.''' 2007. Why non-uniform priors on clades are both unavoidable and unobjectionable. MPE 45:748-749.
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Suggested reading
 
  
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Pickett_Randle_2005_MPE_203-211.pdf}} '''Pickett. K. M., and C. P. Randle'''. 2005. Strange bayes indeed: uniform topological priors imply non-uniform clade priors. MPE 34: 203-211.
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=== Monday, 6 October 2014 ===
  
=== Friday, February 22, 2008 ===
 
''Cancelled due to snow storm''
 
  
=== Friday, February 26, 2008 ===
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=== Monday, 13 October 2014 ===
Discussion leader: Juan Carlos Villarreal Aguilar
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/pagel_etal_2006_science.pdf}} '''Pagel et al.''' 2006. Large Punctuational Contribution of Speciation to Evolutionary Divergence at the Molecular Level. Science 314: 119-121.
 
  
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/pagel-1.etal.20006.science.suppl.pdf}} '''Supporting online material'''
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=== Monday, 20 October 2014 ===
  
=== Friday, February 29, 2008 ===
 
Discussion leader:
 
  
=== Friday, March 7, 2008 ===
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=== Monday, 27 October 2014 ===
Discussion leader: [[Nic Tippery]]
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Ricklefs-2007_diversification.pdf}} '''Ricklefs, R. E.''' 2007. Estimating diversification rates from phylogenetic information. ''Trends in Ecology and Evolution'' 22: 601-610.
 
  
=== Friday, March 14, 2008 ===
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=== Monday, 3 November 2014 ===
No meeting (Spring Break)
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=== Friday, March 21, 2008 ===
 
Discussion leader: Roberta Engel
 
  
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Introduction.pdf}} Introduction of David Baum's book on Tree Thinking
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=== Monday, 10 November 2014 ===
  
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Chapter%201.pdf}} Chapter 1 of David Baum's book on Tree Thinking
 
  
=== Friday, March 28, 2008 ===
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=== Monday, 17 November 2014 ===
Discussion leader: Thiago Rangel
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Chapter%202.pdf}} Chapter 2 of David Baum's book on Tree Thinking
 
  
=== Friday, April 4, 2008 ===
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=== Monday, 1 December 2014===
Discussion leader: Geert Goemans
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-->
 
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Chapter%203.pdf}} Chapter 3 of David Baum's book on Tree Thinking
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=== Friday, April 11, 2008 ===
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Discussion leader: Carrie Fyler
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Chapter4.pdf}} Chapter 4 of David Baum's book on Tree Thinking
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=== Friday, April 18, 2008 ===
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Discussion leader: everyone and no one
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Chapter5.pdf}} Chapter 5 of David Baum's book on Tree Thinking
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=== Friday, April 25, 2008 ===
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Discussion leader: free for all
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Chapter6.pdf}} Chapter 6 of David Baum's book on Tree Thinking
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=== Friday, May 2, 2008 (next meeting) ===
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Discussion leader: Dave Wagner
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Rabosky_Lovette_evo_6.pdf}} Rabosky, D. L., and I. J. Lovette. Explosive evolutionary radiations: decreasing speciation or increasing extinction through time? Submitted manuscript.
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[[#top|Back to top]]
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== Past Systematics Seminars ==
 
== Past Systematics Seminars ==
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* [[Systematics Seminar Fall 2014|Fall 2014]]
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* [[Systematics Seminar Fall 2013|Fall 2013]]
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* [[Systematics Seminar Spring 2012|Spring 2012]]
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* [[Systematics Seminar Fall 2011|Fall 2011]]
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* [http://darwin.eeb.uconn.edu/wiki/index.php/Statistical_phylogeography  Spring 2011] (we joined Kent Holsinger's seminar on Statistical Phylogeography this semester)
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* [[Systematics Seminar Fall 2010|Fall 2010]]
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* [[Systematics Seminar Spring 2010|Spring 2010]]
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* [[Systematics Seminar Fall 2009|Fall 2009]]
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* [[Systematics Seminar Fall 2008|Fall 2008]]
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* [[Systematics Seminar Spring 2008|Spring 2008]]
 
* [[Systematics Seminar Fall 2007|Fall 2007]]
 
* [[Systematics Seminar Fall 2007|Fall 2007]]
 
* [[Systematics Seminar Spring 2007|Spring 2007]]
 
* [[Systematics Seminar Spring 2007|Spring 2007]]

Revision as of 19:25, 23 January 2015

This is the home page of the UConn EEB department's Co-evolution Seminar, taking the place of the Systematics Seminar this semester (EEB 6486). This is a graduate seminar devoted to issues of interest to graduate students and faculty who make up the systematics program at the University of Connecticut.

Click here for information about joining and using the Systematics email list

Meeting time and place

For the Spring 2015 semester, we are meeting in the Bamford Room (TLS 171B) Day/time TBD

Topics

This seminar will be split between class meetings that emphasize phylogenetic underpinnings, tree comparisons, and reconciliation methods, with those focused on the evolutionary processes underlying co-evolutionary phenomena (as well as the forces and circumstances that, more often than not, prevent it from occurring). And while parasites will figure large in our readings and discussions, we will also explore insect-plant co-evolution, endosymbionts and other mutualisms, mimicry, and others.

Tuesday, 20 January 2015

At this meeting we will discuss possible themes for this semester's seminar, and determine the meeting time

Tuesday, 27 January 2015

Pdficon small.gifFutuyma and Slatkin, 1983. Coevolution.
Pdficon small.gifJanzen, 1980. What is coevolution?
Pdficon small.gifEhrlich and Raven, 1964. Butterflies and Plants: A Study in Coevolution.

Past Systematics Seminars