Systematics Seminar

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== Meeting time and place ==
 
== Meeting time and place ==
For the Spring 2012 semester, we are meeting in the '''Bamford Room (TLS 171B) Mondays 3-4pm'''
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For the Fall 2014 semester, we are meeting in the '''Bamford Room (TLS 171B) Mondays 2-3pm'''
  
=== Monday, 23 January 2012 ===
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=== Monday, 25 August 2014 ===
At this meeting we will discuss possible themes for this semester's seminar, but just to get the ball rolling I have uploaded a short Nature paper for us to discuss:
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At this meeting we will discuss possible themes for this semester's seminar:
:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/MoluscsNature.pdf}}Smith et al. 2011. Resolving the evolutionary relationships of molluscs with phylogenomic tools. Nature 480:364-367 (Dec. 2011). [http://www.nature.com/nature/journal/v480/n7377/full/nature10526.html doi:10.1038/nature10526]
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Images created from the data sets provided online showing extent of missing data. The color red indicates new data collected for this study, black indicates existing data, white indicates missing data. Note, if you choose to display these in your browser (rather than downloading them and using Preview or Photoshop to view them), you should be aware that they are very wide but not very tall, so you will have to zoom your browser to see anything (unless you have really good eyes).
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=== Monday, 1 September 2014 ===
:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/small_200x50930.png small_200x50930.png]
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Labor Day, no meeting
:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/large_200x216402.png large_200x216402.png]
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The links below are images of the same two datasets, but wrapped to 1000 pixels wide for easier viewing:
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=== Monday, 8 September 2014 ===
:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/small_50930sites.png small_50930sites.png]
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For this meeting, please come with an example (or examples) of a source of systematic error in datasets, and a paper that attempts to address this source of systematic error. We will use these examples and papers as a basis for discussions in upcoming weeks.
:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/large_216402sites.png large_216402sites.png]
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=== Monday, 30 January 2012 ===
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=== Monday, 15 September 2014 ===
Continuing on the phylogenomic theme, Louise Lewis and Karolina Fučíková will lead a discussion on the following shakeup in the green plant tree:
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/PLoS%20One%202012%20Timme.pdf}}Timme, R. E., T. R. Bachvaroff and C. R. Delwiche. 2012. Broad Phylogenomic Sampling and the Sister Lineage of Land Plants. PLoS One 7: e29696.
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Images created from the data sets provided online showing extent of missing data. The color black indicates existing data, white indicates missing data. Admonitions for similar images posted for last week's paper apply here as well.
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=== Monday, 22 September 2014 ===
:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/S10897_trimmed.png S10897_trimmed.png]
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:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/S10897_full.png S10897_full.png]
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The same as above, but wrapped to 1000 pixels wide (easier to see):
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=== Monday, 29 September 2014 ===
:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/S10897_trimmed_wrap.png S10897_trimmed_wrap.png]
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:[http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/S10897_full_wrap.png S10897_full_wrap.png]
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=== Monday, 6 February 2012 ===
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=== Monday, 6 October 2014 ===
Switching gears a bit, Russ Meister will lead a discussion on some Mosquito phylogenetics work.  Additionally he will talk about the Digital Mosquito Project he is working on.
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Phylogenetic%20analysis%20and%20temporal%20diversification%20of%20mosquitoes.pdf}}Phylogenetic analysis and temporal diversification of mosquitoes.pdf
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=== Monday, 13 October 2014 ===
  
=== Monday, 13 February 2012 ===
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=== Monday, 20 October 2014 ===
Brigette Zacharczenko will discuss some of the challenges of lepidoptera systematics.
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/cho%20et%20al%202011.pdf}}Can Deliberately Incomplete Gene Sample Augmentation Improve a Phylogeny Estimate for the Advanced Moths and Butterflies (Hexapoda: Lepidoptera)?
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=== Monday, 20 February 2012 ===
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=== Monday, 27 October 2014 ===
Emily Ellis
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/tinn%20and%20oakley%202008.pdf}}Erratic rates of molecular evolution and incongruence of fossil and molecular divergence time estimates in Ostracoda
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=== Monday, 27 February 2012 ===
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=== Monday, 3 November 2014 ===
Beth Timpe
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Badets%20et%20al.%202011.pdf}} Badets et al. 2011. ''Correlating Early Evolution of Parasitic Platyhelminths to Gondwana Breakup''
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=== Monday, 10 November 2014 ===
  
=== Monday, 5 March 2012  ===
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=== Monday, 17 November 2014 ===
Ursula King
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Zhang%20et%20al.%202011%20High-Throughput%20Sequencing%20of%20Six%20Bamboo%20Chloroplast%20Genomes.pdf}}Zhang et al. 2011. High-Throughput Sequencing of Six Bamboo Chloroplast Genomes: Phylogenetic Implications for Temperate Woody Bamboos (Poaceae: Bambusoideae)
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=== Monday, 12 March 2012 ===
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=== Monday, 1 December 2014===
'''SPRING BREAK''' - no meeting this week
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=== Monday, 19 March 2012 ===
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Lily Lewis
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Popp%20et%20al.%202011%20PNAS%20%2B%20SI.pdf}}Popp et al. 2011 PNAS + SI.pdf  A single Mid-Pleistocene long-distance dispersal by a bird can explain the extreme bipolar disjunction in crowberries (Empetrum).
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Donoghue%20Commentary%20PNAS%202011.pdf}}Donoghue Commentary PNAS 2011.pdf This is a commentary on the Popp et al. paper if you're interested.
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=== Monday, 26 March 2012 ===
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Geert Goemans and Ben Price
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Moulton%20et%20al%202010.pdf}}Moulton et al 2010.pdf
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/J%20Hered-2007-Rodr%C3%ADguez-243-9.pdf}}J Hered-2007-Rodríguez-243-9.pdf
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=== Monday, 2 April 2012 ===
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Veronica Bueno
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Harrington%26Near%2C%202012%20-%20Phylogenetic%20and%20Coalescent%20Strategies%20of%20Species%20Delimitation%20in%20Snubnose%20Darters.pdf}}Harrington&Near, 2012 - Phylogenetic and Coalescent Strategies of Species Delimitation in Snubnose Darters.pdf
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=== Monday, 9 April 2012 ===
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Timothy Moore
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Barrkman%20et%20al%202007.pdf}}Barrkman et al 2007.pdf
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=== Monday, 16 April 2012 ===
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Erica Lasek-Nesselquist will lead discussion on the following paper:
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Philippe, H, H. Brinkmann, DV Lavrov, DTJ Littlewood, M Manuel, G Wörheide and D. Baurain. 2011. Resolving difficult phylogenetic questions: why more sequences are not enough. PLoS Biology 9(3): e1000602.
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:{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/pbio.1000602.pdf}}pbio.1000602.pdf
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=== Monday, 23 April 2012 ⇐ ===
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Chris Owen will present the following paper: Sanderson, M.J., M.M. McMahon, and M. Steel. 2010. Phylogenomics with incomplete taxon coverage: the limits to inference. BMC Evolutionary Biology 10:155.<br/>
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{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/systematicsseminar/restricted/Sanderson%20et%20al.%202010.pdf}}Sanderson et al. 2010.pdf
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== Past Systematics Seminars ==
 
== Past Systematics Seminars ==
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* [[Systematics Seminar Fall 2013|Fall 2013]]
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* [[Systematics Seminar Spring 2012|Spring 2012]]
 
* [[Systematics Seminar Fall 2011|Fall 2011]]
 
* [[Systematics Seminar Fall 2011|Fall 2011]]
 
* [http://darwin.eeb.uconn.edu/wiki/index.php/Statistical_phylogeography  Spring 2011] (we joined Kent Holsinger's seminar on Statistical Phylogeography this semester)
 
* [http://darwin.eeb.uconn.edu/wiki/index.php/Statistical_phylogeography  Spring 2011] (we joined Kent Holsinger's seminar on Statistical Phylogeography this semester)

Latest revision as of 18:50, 26 August 2014

This is the home page of the UConn EEB department's Systematics Seminar (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

Contents

Meeting time and place

For the Fall 2014 semester, we are meeting in the Bamford Room (TLS 171B) Mondays 2-3pm

Monday, 25 August 2014

At this meeting we will discuss possible themes for this semester's seminar:

Monday, 1 September 2014

Labor Day, no meeting

Monday, 8 September 2014

For this meeting, please come with an example (or examples) of a source of systematic error in datasets, and a paper that attempts to address this source of systematic error. We will use these examples and papers as a basis for discussions in upcoming weeks.

Monday, 15 September 2014

Monday, 22 September 2014

Monday, 29 September 2014

Monday, 6 October 2014

Monday, 13 October 2014

Monday, 20 October 2014

Monday, 27 October 2014

Monday, 3 November 2014

Monday, 10 November 2014

Monday, 17 November 2014

Monday, 1 December 2014

Past Systematics Seminars

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