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DOE JGI Metagenome Workflow.
Clum A, Huntemann M, Bushnell B, Foster B, Foster B, Roux S, Hajek PP, Varghese N, Mukherjee S, Reddy TBK, Daum C, Yoshinaga Y, O'Malley R, Seshadri R, Kyrpides NC, Eloe-Fadrosh EA, Chen IA, Copeland A, Ivanova NN. Clum A, et al. Among authors: yoshinaga y. mSystems. 2021 May 18;6(3):e00804-20. doi: 10.1128/mSystems.00804-20. mSystems. 2021. PMID: 34006627 Free PMC article.
Genome Sequencing.
Yoshinaga Y, Daum C, He G, O'Malley R. Yoshinaga Y, et al. Methods Mol Biol. 2018;1775:37-52. doi: 10.1007/978-1-4939-7804-5_4. Methods Mol Biol. 2018. PMID: 29876807
High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types.
Shulse CN, Cole BJ, Ciobanu D, Lin J, Yoshinaga Y, Gouran M, Turco GM, Zhu Y, O'Malley RC, Brady SM, Dickel DE. Shulse CN, et al. Among authors: yoshinaga y. Cell Rep. 2019 May 14;27(7):2241-2247.e4. doi: 10.1016/j.celrep.2019.04.054. Cell Rep. 2019. PMID: 31091459 Free PMC article.
Long-read metagenomics of soil communities reveals phylum-specific secondary metabolite dynamics.
Van Goethem MW, Osborn AR, Bowen BP, Andeer PF, Swenson TL, Clum A, Riley R, He G, Koriabine M, Sandor L, Yan M, Daum CG, Yoshinaga Y, Makhalanyane TP, Garcia-Pichel F, Visel A, Pennacchio LA, O'Malley RC, Northen TR. Van Goethem MW, et al. Among authors: yoshinaga y. Commun Biol. 2021 Nov 18;4(1):1302. doi: 10.1038/s42003-021-02809-4. Commun Biol. 2021. PMID: 34795375 Free PMC article.
Persistence and plasticity in bacterial gene regulation.
Baumgart LA, Lee JE, Salamov A, Dilworth DJ, Na H, Mingay M, Blow MJ, Zhang Y, Yoshinaga Y, Daum CG, O'Malley RC. Baumgart LA, et al. Among authors: yoshinaga y. Nat Methods. 2021 Dec;18(12):1499-1505. doi: 10.1038/s41592-021-01312-2. Epub 2021 Nov 25. Nat Methods. 2021. PMID: 34824476
Near-Complete Genome Sequence of Zygosaccharomyces rouxii NRRL Y-64007, a Yeast Capable of Growing on Lignocellulosic Hydrolysates.
Jagtap SS, Liu JJ, Walukiewicz HE, Pangilinan J, Lipzen A, Ahrendt S, Koriabine M, Cobaugh K, Salamov A, Yoshinaga Y, Ng V, Daum C, Grigoriev IV, Slininger PJ, Dien BS, Jin YS, Rao CV. Jagtap SS, et al. Among authors: yoshinaga y. Microbiol Resour Announc. 2022 May 19;11(5):e0005022. doi: 10.1128/mra.00050-22. Epub 2022 Apr 20. Microbiol Resour Announc. 2022. PMID: 35442079 Free PMC article.
The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory.
Craig RJ, Gallaher SD, Shu S, Salomé PA, Jenkins JW, Blaby-Haas CE, Purvine SO, O'Donnell S, Barry K, Grimwood J, Strenkert D, Kropat J, Daum C, Yoshinaga Y, Goodstein DM, Vallon O, Schmutz J, Merchant SS. Craig RJ, et al. Among authors: yoshinaga y. Plant Cell. 2023 Feb 20;35(2):644-672. doi: 10.1093/plcell/koac347. Plant Cell. 2023. PMID: 36562730 Free PMC article.
238 results