Skip to content

Archive for

Weekly reading: Anchored Hybrid Enrichment

Another, ground laying paper for us to read and discuss this week on one of the most potent new NGS approaches: Anchored Hybrid Enrichment.

Lemmon, A.R., S.A. Emme & E.M. Lemmon. 2012. Anchored Hybrid Enrichment for massively high-throughput phylogenomics. Systematic Biology 61: 727–744. Available on-line here.

Entomology 2014: 3rd collecting trip to Coon Bluff, Salt River

During the early night hours of Friday, September 19, we had our third collecting trip for this Fall period to the always interesting and productive Coon Bluff Campground, located along the Salt River of the Tonto National Forest. In addition to abundant and diverse moths, we collected a number of antlion species (Neuroptera: Myrmeleontidae) and large to minute beetles flying to the mercury and ultraviolet lights. Recent rains (10 days prior) must have flooded the usually loose and powdery soil which this year appeared solid and compacted. Not many darkling beetles were present, and scarabs were also less frequent than in previous years.

The proper way to record the locality information is “USA: AZ: Maricopa Co.; Tonto NF, Coon Bluff; 33.547349, -111.644989; general coll. & at Hg/UV lights; leg. N. Franz [replace with your name], IX-19-2014″. Photos of the trip are posted here.

Conference presentation: Explaining taxonomy’s legacy to computers – how and why?

I will give an updated presentation on the Euler/X project and concept taxonomy at the conference “The Meaning of Names: Naming Diversity in the 21st Century”, held at the Museum of Natural History, University of Colorado – Boulder, on September 29 to October 01, 2014. Slides are posted on Slideshare, and linked here. Thanks to Rob Guralnick for the invitation!

Franz. 2014. Explaining taxonomy’s legacy to computers – how and why? from taxonbytes

Weekly reading: Bybee et al. on Targeted Amplicon Sequencing

Next up in the weekly Massive, Parallel Sequencing discussion series is:

Bybee et al. 2011. Targeted Amplicon Sequencing (TAS): a scalable Next-Gen approach to multilocus, multitaxa phylogenetics. Genome Biology and Evolution 2011, 3: 1312–1323. Available on-line here.

Symbiota poster at the 10th International Mycological Congress

This a belated poster upload of an innovative study on assessing the accuracy of voucher identifications for lichenized fungi records stored in the Symbiota software platform, presented by Robert Lücking of The Field Museum of Natural History and co-authors at the the 10th International Mycological Congress, Bangkok,Thailand, held on August 03-08, 2014.

Complete poster title: Lücking, R., E. Gilbert, N. Franz, P. Morris, S. Bates, B Thiers & C. Gries. 2014. The Symbiota Portal for North American Collections of Plants, Fungi, and Lichens: how to address the problem of incorrect taxon identifications. inlarge on-line specimen repositories. Poster, 10th International Mycological Congress, Bangkok,Thailand, held on August 03-08, 2014. PDF available here: LueckingEtAl2014-SymbiotaTaxonIdentifications

Entomology 2014: 2nd collecting trip to First Water, Superstition Mountains

On Saturday, September 06, the Entomology 2014 group had its second (morning) collecting trip to the picturesque First Water Trailhead, Superstition Mountains. In spite of a generally wet summer in Central Arizona, First Water appeared dry and insect abundance was comparatively low. It was hot and sunny, with nowhere to escape from the conditions. Nevertheless we collected a range of aquatic and terrestrial insects, including Belostomatidae (giant water bugs) and Nepidae (water scorpions). See more photos here.

The proper way to record the locality information is: USA: AZ: Pinal Co.; First Water Trailhead (FR 78) at Hwy 88; 33.487098, -111.441984; general coll. & aquatic net; leg. N. Franz [replace with your name], IX-06-2014.

Alameda Grand Opening on October 2nd, 2014

The School of Life Sciences’ newly renovated and now fully active space for the Natural History Collections, Informatics and Outreach Group is celebrating a Grand Opening on the afternoon/evening of October 2nd, 2014. The event will introduce the greater ASU community and other interested groups to the facilities and affiliated research and learning programs at Alameda. The Grand Opening will include a ribbon cutting, exhibits, and guided tours through the collections and outreach spaces.

Weekly reading: Lemmon & Lemmon on high-throughput genomic data for phylogenetics

Time to direct our Weekly Discussion series towards Next-Generation Sequencing (NGS) – theory and methods. First up is:

Lemmon, E.M. & A.R. Lemmon. 2013. High-throughput genomic data in systematics and phylogenetics. Annual Review of Ecology, Evolution, and Systematics 44: 99–121. Available on-line here.