Systematics Seminar Fall 2008

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For current Systematics Seminar schedule, go to the Systematics Seminar page.

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

Contents

Meeting time and place

We are meeting this semester in the Bamford Room (TLS 171) Tuesdays 4-5pm.

Theme for Fall Semester 2008

We've agreed to start the semester with some articles on molecular dating, then spend a couple of weeks on taxonomy papers, and possibly read a revised version of David Baum's tree thinking book. If you are interested in leading a particular week's discussion, please sign up below.

Schedule for Fall Semester 2008

Note: the papers linked here require a user name and password to access. If you have forgotten the user name and/or password, contact Paul Lewis. If you want to upload a PDF file for an upcoming discussion, use the Systematics Seminar PDF upload form. Uploading PDFs requires the same user name and password as viewing PDFs.

Tuesday, September 2nd, 2008:

Discussion leader: Elizabeth Wade

Pdficon small.gifDrummond & Rambaut 2007.pdf
Pdficon small.gifMolecular Dating Review (for more background info)

Tuesday, September 9th, 2008

Discussion leader: Christopher Owen

Pdficon small.gifLepage et al. 2007

Tuesday, September 16th, 2008

Discussion leader: Karolina Fučíková

Pdficon small.gifHines, H. 2008.
Pdficon small.gifCameron 2007 (for more info on the original phylogeny)

Tuesday, September 23rd, 2008

Discussion leader: Nic Tippery

Pdficon small.gifRabosky, D. L. and I. J. Lovette. 2008. Explosive evolutionary radiations: Decreasing speciation or increasing extinction through time? Evolution 62-8: 1866-1875.

Tuesday, September 30th, 2008

Discussion leader: Yu(Daniel) Fan

Pdficon small.gifLuthey-Schulten et al. 2008. Molecular signatures of ribosomal evolution. PNAS vol.105 no.37 13953-13958.

Tuesday, October 7th, 2008

Discussion leader: Chris Owen

Pdficon small.gifBond and Stockman 2008

Tuesday, October 14th, 2008

Discussion leader: Yu(Daniel) Fan

Pdficon small.gifLuke Harmon et al. 2008

Tuesday, October 21st, 2008

Seminar postponed due to conflict with a popular Paleo Seminar.

Tuesday, October 28th, 2008

Discussion leader: Karolina Fucikova

Pdficon small.gif Amato et al. 2007, a paper on cryptic species in Diatoms

Tuesday, November 4th, 2008

Discussion leader: Geert Goemans

Pdficon small.gifDamgaard et al., 2008

Tuesday, November 11th, 2008

Discussion leader: Nic Tippery

Please forgive the bulk of papers I have selected for discussion. The large phylogeny papers are simply examples of implementing Phylogenetic Nomeclature, so focus only on the taxonomy and not the phylogenetics. There are two short papers that present two sides of a relatively recent PhyloCode debate, which may form the bulk of our discussion, so please focus on them. I have uploaded the bundle of pdfs to the Drop Box, in a zip file:

Pdficon small.gif
Click here to download.

Summary of papers

Read these papers in their entirety:

  • Pickett, K. M. 2005. The new and improved PhyloCode, now with types, ranks, and even polyphyly: a conference report from the First International Phylogenetic Nomenclature Meeting. Cladistics 21: 79-82.
  • Laurin, M., K. de Queiroz, P. Cantino, N. Cellinese, and R. Olmstead. 2005. The PhyloCode, types, ranks and monophyly: a response to Pickett. Cladistics 21: 605-607.

Example of higher-level taxa (unranked, of course) in plants [the first paper is the phylogenetic taxonomy, and the second gives the complete phylogeny]:

  • Stefanovic, S., D. F. Austin, and R. G. Olmstead. 2003. Classification of Convolvulaceae: A phylogenetic approach. Systematic Botany 28: 791-806.
  • Stefanovic, S., L. Krueger, and R. G. Olmstead. 2002. Monophyly of the Convolvulaceae and circumscription of their major lineages based on DNA sequences of multiple chloroplast loci. American Journal of Botany 89: 1510-1522.

Example of an "incertae sedis" animal species:

  • Dayrat, B. 2005. Advantages of naming species under the PhyloCode : An example of how a new species of Discodorididae (Mollusca , Gastropoda , Euthyneura , Nudibranchia , Doridina ) may be named. Marine Biology Research 1: 216-232.

In the interest of conservation, please avoid printing the phylogenetics papers unless you'll want them later; we'll have enough laptops to share phylogeny images at the meeting.

Tuesday, November 18th, 2008

Discussion leader: Beth Wade

Pdficon small.gifHoskin 2007 .pdf

Tuesday, December 2nd, 2008

Discussion leader: Geert Goemans

Pdficon small.gifTsukamoto et al., 2003 Anguillid eels.pdf

Some papers to pick from

Pdficon small.gif Britton et al. 2007
Pdficon small.gifBurbrink & Pyron 2008



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