Samuel King

All Publications

• DNA-GPS: A theoretical framework for optics-free spatial genomics and synthesis of current methods. Cell systems Greenstreet, L., Afanassiev, A., Kijima, Y., Heitz, M., Ishiguro, S., King, S., Yachie, N., Schiebinger, G. 2023

  Abstract

  While single-cell sequencing technologies provide unprecedented insights into genomic profiles at the cellular level, they lose the spatial context of cells. Over the past decade, diverse spatial transcriptomics and multi-omics technologies have been developed to analyze molecular profiles of tissues. In thisarticle, we categorize current spatial genomics technologies into three classes: optical imaging, positional indexing, and mathematical cartography. We discuss trade-offs in resolution and scale, identify limitations, and highlight synergies between existing single-cell and spatial genomics methods. Further, we propose DNA-GPS (global positioning system), a theoretical framework for large-scale optics-free spatial genomics that combines ideas from mathematical cartography and positional indexing. DNA-GPS has the potential to achieve scalable spatial genomics for multiple measurement modalities, andby eliminating the need for optical measurement, it has the potential to position cells in three-dimensions (3D).

  View details for DOI 10.1016/j.cels.2023.08.005

  View details for PubMedID 37751737

• Young innovators and the bioeconomy Genomics and the Global Bioeconomy Chen, X. E., King, S., Ng, S. W., Salman, P., Schwab, J. C., Sekhon, P. Academic Press. 2023; 1st: 83-100

  View details for DOI 10.1016/b978-0-323-91601-1.00005-5

• Subcellular coordination of plant cell wall synthesis DEVELOPMENTAL CELL Hoffmann, N., King, S., Samuels, A., McFarlane, H. E. 2021; 56 (7): 933-948

  Abstract

  Organelles of the plant cell cooperate to synthesize and secrete a strong yet flexible polysaccharide-based extracellular matrix: the cell wall. Cell wall composition varies among plant species, across cell types within a plant, within different regions of a single cell wall, and in response to intrinsic or extrinsic signals. This diversity in cell wall makeup is underpinned by common cellular mechanisms for cell wall production. Cellulose synthase complexes function at the plasma membrane and deposit their product into the cell wall. Matrix polysaccharides are synthesized by a multitude of glycosyltransferases in hundreds of mobile Golgi stacks, and an extensive set of vesicle trafficking proteins govern secretion to the cell wall. In this review, we discuss the different subcellular locations at which cell wall synthesis occurs, review the molecular mechanisms that control cell wall biosynthesis, and examine how these are regulated in response to different perturbations to maintain cell wall homeostasis.

  View details for DOI 10.1016/j.devcel.2021.03.004

  View details for Web of Science ID 000641581300008

  View details for PubMedID 33761322