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Creators/Authors contains: "Jensen, Jacob"

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  1. Udall, J (Ed.)
    Abstract Availability of readily transformable germplasm, as well as efficient pipelines for gene discovery are notable bottlenecks in the application of genome editing in potato. To study and introduce traits such as resistance against biotic and abiotic factors, tuber quality traits and self-fertility, model germplasm that is amenable to gene editing and regeneration is needed. Cultivated potato is a heterozygous autotetraploid and its genetic redundancy and complexity makes studying gene function challenging. Genome editing is simpler at the diploid level, with fewer allelic variants to consider. A readily transformable diploid potato would be further complemented by genomic resources that could aid in high throughput functional analysis. The heterozygous Solanum tuberosum Group Phureja clone 1S1 has a high regeneration rate, self-fertility, desirable tuber traits and is amenable to Agrobacterium-mediated transformation. We leveraged its amenability to Agrobacterium-mediated transformation to create a Cas9 constitutively expressing line for use in viral vector-based gene editing. To create a contiguous genome assembly, a homozygous doubled monoploid of 1S1 (DM1S1) was sequenced using 44 Gbp of long reads generated from Oxford Nanopore Technologies (ONT), yielding a 736 Mb assembly that encoded 31,145 protein-coding genes. The final assembly for DM1S1 represents a nearly complete genic space, shown by the presence of 99.6% of the genes in the Benchmarking Universal Single Copy Orthologs (BUSCO) set. Variant analysis with Illumina reads from 1S1 was used to deduce its alternate haplotype. These genetic and genomic resources provide a toolkit for applications of genome editing in both basic and applied research of potato. 
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  2. ABSTRACT We present the discovery and characterization of six short-period, transiting giant planets from NASA’s Transiting Exoplanet Survey Satellite (TESS) -- TOI-1811 (TIC 376524552), TOI-2025 (TIC 394050135), TOI-2145 (TIC 88992642), TOI-2152 (TIC 395393265), TOI-2154 (TIC 428787891), and TOI-2497 (TIC 97568467). All six planets orbit bright host stars (8.9 <G < 11.8, 7.7 <K < 10.1). Using a combination of time-series photometric and spectroscopic follow-up observations from the TESS Follow-up Observing Program Working Group, we have determined that the planets are Jovian-sized (RP  = 0.99--1.45 RJ), have masses ranging from 0.92 to 5.26 MJ, and orbit F, G, and K stars (4766 ≤ Teff ≤ 7360 K). We detect a significant orbital eccentricity for the three longest-period systems in our sample: TOI-2025 b (P  = 8.872 d, 0.394$$^{+0.035}_{-0.038}$$), TOI-2145 b (P  = 10.261 d, e  = $$0.208^{+0.034}_{-0.047}$$), and TOI-2497 b (P  = 10.656 d, e  = $$0.195^{+0.043}_{-0.040}$$). TOI-2145 b and TOI-2497 b both orbit subgiant host stars (3.8 < log  g <4.0), but these planets show no sign of inflation despite very high levels of irradiation. The lack of inflation may be explained by the high mass of the planets; $$5.26^{+0.38}_{-0.37}$$ MJ (TOI-2145 b) and 4.82 ± 0.41 MJ (TOI-2497 b). These six new discoveries contribute to the larger community effort to use TESS to create a magnitude-complete, self-consistent sample of giant planets with well-determined parameters for future detailed studies. 
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