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At least 415 records · Page 23

Co-locality to co-functionality: Eukaryotic gene neighborhoods as a resource for function

Diverging from the classic paradigm of random gene order in eukaryotes, gene proximity can be leveraged to systematically identify functionally related gene neighborhoods in eukaryotes, utilizing techniques pioneered in bacteria. Current methods of identifying gene neighborhoods typically rely on sequence similarity to characterized gene products. However, this approach is not robust for non model organisms like algae, which are evolutionarily distant from well-characterized model organisms. Here, we utilize a comparative genomic approach to identify evolutionarily conserved Proximal Orthologous Gene (POG) pairs conserved across at least two taxonomic classes of green algae. A total of 317 gene neighborhoods were identified. In some cases, gene proximity appears to have been conserved since before the streptophyte-chlorophyte split, 1,000 million years ago. Using functional inferences derived from reconstructed evolutionary relationships, we identified several novel functional clusters. A putative mycosporine-like amino acid (MAA), "sunscreen", neighborhood contains genes similar to either vertebrate or cyanobacterial pathways, suggesting a novel mosaic biosynthetic pathway in green algae. One of two putative arsenic-detoxification neighborhoods includes an organoarsenical transporter (ArsJ), a glyceraldehyde 3-phosphate dehydrogenase-like gene, homologs of which are involved in arsenic detoxification in bacteria, and a novel algal-specific phosphoglycerate kinase-like gene (PGK). Mutants of the ArsJ-like transporter and PGK-like genes in Chlamydomonas reinhardtii were found to be sensitive to arsenate, providing experimental support for the role of these identified neighbors in resistance to arsenate. Potential evolutionary origins of neighborhoods are discussed, and updated annotations for formerly poorly annotated genes are presented, highlighting the potential of this strategy for functional annotation.

59 BASIC BIOLOGICAL SCIENCES↗

Intrinsic Mechanism for Anisotropic Magnetoresistance and Experimental Confirmation in Co{sub x}Fe{sub 1-x} Single-Crystal Fims.

Using first-principles transport calculations, we predict that the anisotropic magnetoresistance (AMR) of single-crystal CoxFe1-x alloys is strongly dependent on the current orientation and alloy concentration. An intrinsic mechanism for AMR is found to arise from the band crossing due to magnetization-dependent symmetry protection. These special k points can be shifted towards or away from the Fermi energy by varying the alloy composition and hence the exchange splitting, thus allowing AMR tunability. The prediction is confirmed by delicate transport measurements, which further reveal a reciprocal relationship of the longitudinal and transverse resistivities along different crystal axes.

Zeng, F. L.↗

Summer 2021 Co-op Report: X-Ray Scintillation Detector (A Co-op Work Experience Report)

The M-3 team was in need of a detector that could be used properly characterize their X-Ray machines. It can also be used to diagnose the X-ray in the case that problems arise before or during an experiment. They put me in charge of designing, ordering, and constructing said detector. After doing research, I found that scintillation-based detectors would be the best diagnostic tool for this purpose. It will allow the team to collect a full photon count of the X-ray pulse as well as provide spectroscopy functions with which we can view photon counts at different energy levels. This will also allow them to calculate an accurate dose given from the machine. Due to lead times, the crystals are still in manufacturing, thus the detector could not be completed. Although the designs and calculations needed to construct and operate the scintillator have been completed which is what I will be presenting in this document. Compared to the detectors being used before, my design offers a cheaper and far more efficient alternative.

42 ENGINEERING↗

HydroFish: freshwater fish co-occurrence with hydropower plants and non-powered dams in conterminous United States sub-basins

The HydroFish dataset lists all existing hydropower plants (EHAs) and non-powered dams (NPDs; ≥ 0.001 MW potential nominal capacity), delineates the hydrologic sub-basins in which they are situated, and then lists all freshwater fish species reported to occur in those sub-basins. This dataset was compiled using the HydroBio dataset (https://hydrosource.ornl.gov/data/datasets/hydrobio/) and contains 24 total variables that describe hydrologic sub-basins, each unique EHA (plant ID and name, geographic coordinates, permit type, capacity, etc.) and NPD (ID value, known names, geographic coordinates, and estimated potential nominal capacity), and freshwater fish species in the sub-basin (common and scientific name, origin, and migratory and threat status). The HydroBio dataset was built using Oak Ridge National Laboratory’s Existing Hydropower Assets Dataset (2024 version) and Non-powered Dam Technical Potential Dataset (2024 version), and NatureServe’s fish species distribution dataset (2023 version). The dataset also contains summary variables that report the unique number of EHAs, NPDs, and freshwater fish species per sub-basin. The HydroFish dataset contains two unique data files: 1) a .csv metadata file describing the dataset variables, and 2) a .csv data file containing the actual dataset. Note that there may be many rows per unique existing hydropower plant or non-powered dam given that distinct species are listed per existing plant or NPD per sub-basin. The dataset is downloadable as a zip file containing the metadata and dataset files.

Bozeman, Bryan [Oak Ridge National Laboratory (ORN↗