EEB Readings, Sept. 13-17

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The speciation reading group.

Monday: Speciation discussion group.  2PM in Graduate Student Lounge.  Pages 66 – 110 of Coyne and Orr on studying speciation and allopatric speciation.

Tuesday: EEB Journal club. 12:30 in Hutch 316. Poole et al. (2010) Population genetic inference from genomic sequence variation. Genome Research 20:291-300. [doi link]

Wednesday: Island biogeography discussion group.  Noon in Hutch 337.  Chapter 3 of The Theory of Island Biogeography Revisited (Schoener’s chapter on what the MacArthur & Wilson model said and how it was tested).  Bring $6 if you want in on pizza from Great Northern Pizza Kitchen.

Fall Seminar Series Starts This Week!

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©2009 Sean McCann All Rights Reserved Contact: www.cirrusimage.com/copyright.htm

Our first seminar of the fall semester happens this Friday at 3PM, when we’ll hear from new Jaenike Lab post-doc Quinn McFrederick on Evolution of nematode associates of solitary and social halictid bees. See you there!

Ithaca Field Trip

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The Museum of the Earth’s temporary exhibit on speciation One Fish, Two Fish, Old Fish, New Fish is closing at the end of this week. The Glor Lab is planning to head down to pick up some material we donated to the exhibit on Saturday morning. Drop Rich a line if you’re interested in tagging along. We can hit the Ithaca Farmer’s Market too!

UPDATE: Photos from our trip are here.

New Fall Discussion Group: Island Biogeography

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biogeography_revisitedThis fall, the Glor Lab’s weekly meetings will focus on the topic of island biogeography.  The plan is to work through a new edited volume on The Theory of Island Biogeography Revisited.  Before digging into this volume, however, we’re going to kick things off with a discussion of MacArthur and Wilson’s classic monograph – The Theory of Island Biogeography. Our discussion of this monograph will take place this Thursday or Friday at a time that has yet to be determined (pending availability of course schedules).  If you want to be kept informed of our plans, just drop Rich an e-mail.

New Fall Discussion Group: Speciation by Coyne and Orr

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speciation_coverA small group has just started meeting to discuss Coyne and Orr’s 2004 monograph on speciation. Our meetings are scheduled for 2PM on Mondays in the graduate student lounge, but that time may change when classes get underway.  We discussed chapter 1 today, and will be moving on to chapter 2 for next week.  Contact Anthony Geneva if you want to get on the mailing list for this group.

Fall EEB Seminar Schedule Released

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We’re going to have some excellent seminars this fall, including a nice mix of distinguished visitors (Mollie Manier, Syracuse University; Angela Douglas, Cornell University; Thomas Kocher, University of Maryland; Tristan Stayton, Bucknell University) and updates from students (Cattani, McNabney, Laport), postdocs (McFrederick), and faculty (Orr, Glor, Seluanov, Garrigan) in our group. PDF version of schedule

Lecture Schedule for Fall 2010 Topics Course

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We have a tentative schedule available for students enrolled in the graduate core course this fall (BIO473). This semester will feature field ecology (Ramsey), evolution and development (Lambert), phylogenetics and comparative methods (Glor), and philosophy of evolutionary biology (Weslake).

9/2 – Introduction to the graduate program
9/7 – Field Ecology (Ramsey)
9/9 – Field Ecology (Ramsey)
9/14 – Field Ecology (Ramsey)
9/16 – Field Ecology (Ramsey)
9/21 – Field Ecology (Ramsey)
9/23 – Field Ecology (Ramsey)
9/28 – Field Ecology (Ramsey)
9/30 – Field Ecology (Ramsey)
10/5 – Field Ecology (Ramsey)
10/7 – Evolution & Development (Lambert)
10/12 – Evolution & Development (Lambert)
10/14 – Evolution & Development (Lambert)
10/19 – Evolution & Development (Lambert)
10/21 – Evolution & Development (Lambert)
10/26 – Phylogenetics and Comparative Methods (Glor)
10/28 – Phylogenetics and Comparative Methods (Glor)
11/2 – Phylogenetics and Comparative Methods (Glor)
11/4 – Phylogenetics and Comparative Methods (Glor)
11/9 – Phylogenetics and Comparative Methods (Glor)
11/11 – Phylogenetics and Comparative Methods (Glor)
11/16 – Phylogenetics and Comparative Methods (Glor)
11/18 – Phylogenetics and Comparative Methods (Glor)
11/23 – Phylogenetics and Comparative Methods (Glor)
11/25 – THANKSGIVING
11/30 – Philosophy of Biology (Weslake)
12/2 – Philosophy of Biology (Weslake)
12/7 – Philosophy of Biology (Weslake)
12/9 – Philosophy of Biology (Weslake)

Reading List for Journal Club on Population Genomics

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Dan Garrigan has provided this preliminary list for the Fall 2010 journal club:

1.  Pool et al. (2010) Population genetic inference from genomic sequence variation.  Genome Research 20: 291-300. [doi link]

2.  Mardis (2008) Next-generation DNA sequencing methods. Annual Review of Genomics and Human Genetics 9: 387-402. [doi link]

3.  Begun et al. (2007) Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans.  PLoS Biology 5: 2534-2559. [doi link]

4.  Liti et al. (2009) Population genomics of domestic and wild yeasts.  Nature 458: 337-341. [doi link]

5.  Neafsey et al. (2010) Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control. Genome Research 20: 938-946. [doi link]

6.  Xia et al. (2009) Complete resequencing of 40 genomes reveal domestication events and genes in silkworm (Bombyx). Science 326: 433-436. [doi link]

7.  Korbel et al. (2007) Paired-end mapping reveals extensive structural variation in the human genome.  Science 318: 420-426. [doi link]

8.  Ossowski et al. (2008) Sequencing of natural strains of Arabidopsis thaliana with short reads. Genome Research 18: 2024-2033. [doi link]

9.  Hellmann et al. (2008) Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals.  Genome Research 18: 1020-1029. [doi link]

10.  Cridland and Thornton (2010) Validation of rearrangement break points identified by paired-end sequencing in natural populations of Drosophila mealnogaster.  Genome Biology & Evolution 2: 83-101.

11.  Lynch (2009) Estimation of allele frequencies from high-coverage genome-sequencing projects. Genetics 182: 295-301. [doi link]

12.  Hahn (2006) Accurate inference and estimation in population genomics. Molecular Biology and Evolution 23: 911-918. [doi link]

Welcome New Postdoc Quinn McFrederick

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summer-08-trip-part-1-179

Quinn McFrederick joined the Jaenike lab in mid-June. He hails originally from the west coast and after finishing his B.Sc. at UC-Berkeley he spent a good bit of time working in various zoos taking care of raptors, arthropods and other interesting wildlife. He returned to academia at San Francisco State University, where he did a Master’s on bumblebee diversity in urban parks with Gretchen LeBuhn. Finally, it was time for Quinn to see how the world outside of California lives, so he started a PhD at Univ. of Virginia in the lab of Doug Taylor. His PhD was on the evolutionary ecology of nematodes that are known to live only in bees and appear to be commensals. In the Jaenicke lab he has expanded his worm work to nematodes that cause diseases among mammals. He is an avid cyclist and has traveled widely- be sure to spend some time talking to him soon as he will be leaving for a NSF post-doc at UT-Austin in December.