Assignments

First reading assignments of 2009

cooper — Thu, 22 Jan 2009 03:29:10 +0000

For next week’s lectures, please read:

Hughes Martiny et al, Microbial Biogeography Nat Rev Micro

I’ve highlighted several sections in the article that are especially worthwhile. It’s a bit long and dense, so pace yourself and try to sort out the different explanations for why everything might not be everywhere.

For next week’s recitation (in place of lab), which will take place in Rudman 203, please read:

Whitaker et al, Sulfolobus hot spring biogeography

and, if it helps you understand how they came to their conclusions, their methods:

http://www.sciencemag.org/cgi/content/full/sci;1086909/DC1

In advance of recitation, please write a post on your blog on the following:

Is everything everywhere? How much does the environment select? Are there barriers to dispersal for microbes?

For those of you who really dig this, there’s an excellent follow-up study that you may wish to read (optional), which can be found here:

http://www.ncbi.nlm.nih.gov/pubmed/16093568?dopt=Abstract

Spring 2009 assignments

cooper — Tue, 20 Jan 2009 18:06:11 +0000

This is where copyright protected readings will be posted. Thanks for stopping by and stay tuned.

Comparing microbial communities to understand rules for their assembly

cooper — Mon, 05 May 2008 02:43:26 +0000

See the following 2007 paper in Science:

von-meering-et-al-science-2007-quantitative-phylogeny.pdf

Student chosen readings for evolution of community structure in space or time

cooper — Thu, 17 Apr 2008 19:21:08 +0000

Dave chose: bull-rice-molineaux-1991.pdf

Sam chose: hoekstra-et-al-rock-paper-scissors-pnas-02.pdf

Dan chose: maclean-and-gudelj-nature-yeast-competition.pdf

Laura chose: prado-and-kerr-evolution-2007.pdf

Abe chose: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0000634

Cooperation and cheating in space and time

cooper — Mon, 14 Apr 2008 19:52:50 +0000

For the week of 4/15/08:

chao-and-levin-1981.pdf

kerr-et-al-nature-2002.pdf

Myxococcus xanthus: Cooperation and cheating

steffen — Sun, 06 Apr 2008 18:57:17 +0000

For this week we are going to focus on papers 3 and 5 on this list, but I have also posted the Velicer’s 1st Myxo paper as well as some others that may help you in understanding the papers for this week.

1. velicer-et-al-nature-2000.pdf

2. velicer-and-yu-2003-nature.pdf

3. velicer-plos-2005.pdf

4. velicer-nature-2006.pdf

5. velicer-pnas-px.pdf

Very short essay that I will talk about briefly on thursday

steffen — Fri, 21 Mar 2008 02:03:06 +0000

Please read for thursday as well

unity-from-conflict.pdf

Thursday recitation paper

steffen — Fri, 21 Mar 2008 01:11:12 +0000

Original Rainey and Travisano Nature Paper rainey-and-travisano-nature.pdf

Review original paper before you read the paper below.

The paper for recitation on thursday is: rainey-2007.pdf

Immigration history controls diversification in experimental adaptive radiation

Tadashi Fukami¹, Hubertus J. E. Beaumont², Xue-Xian Zhang² & Paul B. Rainey²

Nature. 22 March 2007.

Steffen

Another good review on using microbes for experimental evolution.

steffen — Wed, 05 Mar 2008 05:21:39 +0000

feldgarden-selection-experiments.pdf

Readings for 3/06 and 3/13

cooper — Tue, 04 Mar 2008 20:23:49 +0000

Dear all,

For 3/06, please read: Taddei et al Science mutator evo

As a reference for experimental evolution, in general, see: Cooper encylopedia chapter

For those interested further in the effects of chance and history on subsequent adaptation, check out this great paper: moore_and_woods_biojlinnsoc.pdf

For 3/13, please read: Cooper TF, recombination and adaptation. You will blog on this article for Thursday’s recitation as well.