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Author Archives: David Maddison
Zephyr 2.0 and Mesquite 3.3 released
Yesterday, after about three years in gestation, we released Zephyr 2.0. Zephyr is a Mesquite package that manages interactions with phylogeny inference packages including RAxML, GARLI, PAUP, and TNT. The most notable additions to Zephyr 2 include implementation of the … Continue reading
Happiness is a Big Tree on the Wall
In the hallway outside my lab, about 800 species of Bembidiina, together in one tree. 🙂
Posted in Tree of Life
Tagged beetle, Bembidiina, Bembidion, Carabidae, DNA, Lionepha, phylogenetics, phylogeny
1 Comment
A Stained Trepanedoris
I started learning how to do stained glass pieces over the summer, and for my first piece I decided to honor our Discovering Insect Species class by doing the head of an undescribed species of Bembidion (Trepanedoris) that we discovered. I … Continue reading
Flavor 100
Today we reached a milestone: our 100th flavor in our approximately weekly Guess the Potato Chip Flavor event in my lab. Today we decided to celebrate the event not only with our 100th flavor, but also with five other flavors to round … Continue reading
Posted in fun stuff, Miscellany
4 Comments
Discovering Insect Species: the Trepaneleven Awards!
In the Discovering Insect Species course, the eleven of us (students Alex, Ana, Danielle, Elle, Julia, Mamo, Shannon, Tom, and Trevin, plus John and me) formed a great team, and we learned a lot together. Over the course of the … Continue reading
Discovering Insect Species: Overview in Rearview
When last I blogged, the Discovering Insect Species course was in full swing; we were excitedly waiting for the DNA sequence results from our first big field trip, which was to Klamath Marsh National Wildlife Refuge. I’m sorry I didn’t … Continue reading
Discovering Insect Species: DNA magic in Arizona
I got the email from FedEx saying that our package of four plates of 384 PCR samples had arrived at the University of Arizona, where they will be sequenced. These plates contain the DNA from multiple genes from over 120 … Continue reading
Discovering Insect Species: the beetle DNA heads south
In an earlier post, I outlined the steps we took to extract and amplify DNA from the beetles we collected in the Discovering Insect Species field trip to Klamath Marsh. As mentioned, the students extracted DNA from 36 beetles, … Continue reading
A nematode-filled Bembidion canadianum
Shannon, a student in the Discovering Insect Species course, went down to Eugene last weekend and looked for Trepanedoris. To say that she did well would be an understatement. She caught all four species that I had seen from the … Continue reading
Posted in Revising Bembidiina, Z499 (Discovering Insect Species)
Tagged Bembidion, nematodes, Trepanedoris
1 Comment
Discovering Insect Species: preparing beetle DNA
Over the last couple of weeks in our Discovering Insect Species course we have been processing samples from our Klamath Marsh trip, and worked with the DNA of the beetles. Here’s a bit of what we have done. Extracting the … Continue reading
Posted in Revising Bembidiina, Uncategorized, Z499 (Discovering Insect Species)
Tagged Bembidion, DNA, DNA taxonomy, Trepanedoris
2 Comments
David Maddison