SCRIPT : A Legacy of Vitality

Peer reviewedPublisher PD

Night of the twisters: A comprehensive unit

The purpose of the project was to develop a comprehensive literature unit that integrates essential meteorology study within the relevant chapters of the book. Since the development of such a unit needed to encompass much more than merely the reading of the book and the study of applicable meteorological material, a multi-faceted literature experience was designed

Ohio River Bridges, East End Crossing

The East End Crossing of the Ohio River Bridges Project is pursuing sustainability certification using Envision. When certified, it will be one of the largest P3 infrastructure projects in North America to be third-party certified by a horizontal infrastructure sustainability rating system. In this presentation owner’s representatives will discuss how the owner’s early commitment ensured that sustainability practices were followed, the inherent compatibility of P3 projects with Envision, how collaboration among team members enhanced performance, and lessons learned

Case Studies on Optimizing Algorithms for GPU Architectures

Modern GPUs are complex, massively multi-threaded, and high-performance. Programmers naturally gravitate towards taking advantage of this high performance for achieving faster results. However, in order to do so successfully, programmers must first understand and then master a new set of skills – writing parallel code, using different types of parallelism, adapting to GPU architectural features, and understanding issues that limit performance. In order to ease this learning process and help GPU programmers become productive more quickly, this dissertation introduces three data access skeletons (DASks) – Block, Column, and Row -- and two block access skeletons (BASks) – Block-By-Block and Warp-by-Warp. Each “skeleton” provides a high-performance implementation framework that partitions data arrays into data blocks and then iterates over those blocks. The programmer must still write “body” methods on individual data blocks to solve their specific problem. These skeletons provide efficient machine dependent data access patterns for use on GPUs. DASks group n data elements into m fixed size data blocks. These m data block are then partitioned across p thread blocks using a 1D or 2D layout pattern. The fixed-size data blocks are parameterized using three C++ template parameters – nWork, WarpSize, and nWarps. Generic programming techniques use these three parameters to enable performance experiments on three different types of parallelism – instruction-level parallelism (ILP), data-level parallelism (DLP), and thread-level parallelism (TLP). These different DASks and BASks are introduced using a simple memory I/O (Copy) case study. A nearest neighbor search case study resulted in the development of DASKs and BASks but does not use these skeletons itself. Three additional case studies – Reduce/Scan, Histogram, and Radix Sort -- demonstrate DASks and BASks in action on parallel primitives and also provides more valuable performance lessons.Doctor of Philosoph

Fungi and algae co-occur in snow: an issue of shared habitat or algal facilitation of heterotrophs?

Citation: Brown, S. P., Olson, B., & Jumpponen, A. (2015). Fungi and algae co-occur in snow: an issue of shared habitat or algal facilitation of heterotrophs? Arctic Antarctic and Alpine Research, 47(4), 729-749. doi:10.1657/aaar0014-071Late season alpine snows are often colonized by psychrophilic snow algae that may provide a source of nutrients for microbes. Such late season snows are a harsh environment, but support a diverse and complex fungal community. We used culture independent methods (Illumina MiSeq) to test if the presence of snow algae influences fungal communities. We compared algae-colonized snows to adjacent (3 m distant) noncolonized snows in a paired experimental design. Our data indicate that several fungi are locally enriched in algae colonized snows. Although many such fungi were basidiomycetous yeasts, our analyses identified a large number of snow-borne members of phylum Chytridiomycota. While the ecology and function of these Chytridiomycetes remain unclear, we hypothesize that their enrichment in the algal patches suggests that they depend on algae for nutrition. We propose that these chytrids are important components in snow ecosystems, highlighting the underestimation of their diversity and importance. Taken together, our data strongly indicate that fungal communities are heterogeneous in snow even among adjacent samples. Further, fungal and algal communities may be influenced by similar environmental drivers resulting in their co-occurrence in snow

A community of clones: Snow algae are diverse communities of spatially structured clones

Citation: Brown, S. P., Ungerer, M. C., & Jumpponen, A. (2016). A community of clones: Snow algae are diverse communities of spatially structured clones. International Journal of Plant Sciences, 177(5), 432-439. doi:10.1086/686019Premise of research. Snow algae are cosmopolitan and often colonize late-season snowpacks. These snow algae do not occur in isolation; rather, visible algal blooms consist of multispecies communities. Although several of these common snow algae have been characterized taxonomically, their inter- and intraspecific diversity remains unknown. Further, the phylogeographic and biogeographic structuring of snow algal species is poorly understood. Methodology. Algal communities were censused by sequencing the variable internal transcribed spacer 2 locus using Illumina MiSeq. We further analyzed two of the most common and abundant algal operational taxonomic units (OTUs) for biogeographic haplotype diversity. Pivotal results. Our data show that the communities are diverse and taxonomically broad (orders: Chlamydomonadales [74% of OTUs], Microthamniales [20% OTUs], and Chlorellales [6% OTUs]). We demonstrate that the two most common species (best nucleotide basic local alignment search tool match to Coenochloris sp. and Chlamydomonas sp.) have distinct haplotype distributions locally and regionally. Each sampled algal colony was dominated by one and only one haplotype, with negligible intraspecific haplotype diversity. Conclusions. Our results suggest that snow algae are communities of clones within a discrete patch yet are heterogeneous across the landscape. Thus, these communities are likely structured via strong priority effects, intense kin competition, and dispersal limitations. © 2016 by The University of Chicago. All rights reserved