Resources for drought genes in sunflower

Recently, I hassled people until they gave me places to look for lists of genes expressed in response to drought treatment in Helianthus. Perhaps you will find it useful too?

Marchand et al. 2014 drought gene regulatory network: http://onlinelibrary.wiley.com/doi/10.1111/nph.12818/full.

Based on experimental data from Rengel et al. 2012: http://dx.plos.org/10.1371/journal.pone.0045249

And more in Marchand’s thesis: http://thesesups.ups-tlse.fr/2597/

Additionally, Min has some data/preliminary analysis from a microarray study in sunflower. Contact him for more info?

Blog comments closed!? Short term fix

Featured

For some reason, caused by either WordPress or an associated plugin, comment sections are closed for all the current and new posts, as far as I can tell. The ultimate solution may require a bit of work. But for the moment, if you write a post or want to comment on a post, do this to turn on the comments:

  1. Log in.
  2. Go to the RLR blog dashboard (dial icon, top left of screen).
  3. Click on Posts/All Posts on left-side panel.
  4. Find the slug of the post you are interested in. Click the “Quick Edit” link under the post’s title.
  5. Click the box “Allow comments”. Comments should now be turned on, go to post and comment at will.

If anyone feels inclined to come up with a universal or permanent solution, this might be a place to start.

Quick phylogenetic trees colored by trait in R

Basically, here is some easy code to search publicly available databases to determine a trait value for a species (in this case whether or not the species was recorded as invasive in any of 5 global invasive species databases), then make a quick tree based on published phylogenies using Phylomatic (http://phylodiversity.net/phylomatic/), then color code the tree based on the trait value.

Subset of species from Asteraceae and whether they have been reported as invasive ('weedy') in any of 5 global invasive species databases.

Subset of species from Asteraceae and whether they have been reported as invasive (‘weedy’) in any of 5 global invasive species databases.

Continue reading

RSS feed? (Kathryn)

Hello people who know these things!

Is there a way for me to get an RSS feed for this blog so that I can get updates in my Google Reader? I assume you have to do something with the log in…

thanks!

Kathryn

Bioanalyzer (Kathryn)

The bioanalyzer can be useful for quantifying and quality checking double stranded DNA, RNA, and proteins. This method of gel electrophoresis will tell you both fragment size and concentration for each fragment, using up only 1 uL of sample. The reagents and chips are expensive (for the High Sensivity chips, ~$100/11 samples/single use  chip), and have limited shelf life (4 months or less).

Rieseberg lab members have used this machine to check the quality of sequencing libraries and cDNA for microarray expression analyses. Various DNA and RNA kits are available, depending on what you want to measure, and their specs are at the bottom of this post.

Continue reading