Plant single-cell solutions for energy and the environment

Cole, Benjamin; Bergmann, Dominique; Blaby-Haas, Crysten E.; Blaby, Ian K.; Bouchard, Kristofer E.; Brady, Siobhan M.; Ciobanu, Doina; Coleman-Derr, Devin; Leiboff, Samuel; Mortimer, Jenny C.; Nobori, Tatsuya; Rhee, Seung Y.; Schmutz, Jeremy; Simmons, Blake A.; Singh, Anup K.; Sinha, Neelima; Vogel, John P.; O’Malley, Ronan C.; Visel, Axel; Dickel, Diane E.

doi:10.1038/s42003-021-02477-4

Title: Plant single-cell solutions for energy and the environment

Journal Article · 12 August 2021 · Communications Biology

DOI: https://doi.org/10.1038/s42003-021-02477-4 · OSTI ID:1819183

^[1]; Bergmann, Dominique ^[2]; Blaby-Haas, Crysten E. ^[3];

^[1]; Bouchard, Kristofer E. ^[4]; Brady, Siobhan M. ^[5]; Ciobanu, Doina ^[1]; Coleman-Derr, Devin ^[6]; Leiboff, Samuel ^[7]; Mortimer, Jenny C. ^[8];

^[9]; Rhee, Seung Y. ^[10];

^[11];

^[12]; Singh, Anup K. ^[13]; Sinha, Neelima ^[14];

^[15];

^[1];

^[16]

USDOE Joint Genome Institute (JGI), Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Stanford Univ., CA (United States). Howard Hughes Medical Institute
Brookhaven National Lab. (BNL), Upton, NY (United States); Stony Brook Univ., NY (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Univ. of California, Berkeley, CA (United States). Helen Wills Neuroscience Institute & Redwood Center for Theoretical Neuroscience
Univ. of California, Davis, CA (United States). Genome Center
US Dept. of Agriculture (USDA), Albany, CA (United States). Agricultural Research Service
Oregon State Univ., Corvallis, OR (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Joint BioEnergy Institute (JBEI), Emeryville, CA (United States); Univ. of Adelaide, SA (Australia). Waite Research Institute
Salk Institute for Biological Studies, La Jolla, CA (United States). Plant Biology Laboratory and Howard Hughes Medical Institute
Carnegie Inst. of Science, Stanford, CA (United States)
USDOE Joint Genome Institute (JGI), Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); HudsonAlpha Institute for Biotechnology, Huntsville, AL (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Joint BioEnergy Institute (JBEI), Emeryville, CA (United States)
Sandia National Lab. (SNL-CA), Livermore, CA (United States)
Univ. of California, Davis, CA (United States)
USDOE Joint Genome Institute (JGI), Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Univ. of California, Berkeley, CA (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Progress in sequencing, microfluidics, and analysis strategies has revolutionized the granularity at which multicellular organisms can be studied. In particular, single-cell transcriptomics has led to fundamental new insights into animal biology, such as the discovery of new cell types and cell type-specific disease processes. However, the application of single-cell approaches to plants, fungi, algae, or bacteria (environmental organisms) has been far more limited, largely due to the challenges posed by polysaccharide walls surrounding these species’ cells. In this perspective, we discuss opportunities afforded by single-cell technologies for energy and environmental science and grand challenges that must be tackled to apply these approaches to plants, fungi and algae. We highlight the need to develop better and more comprehensive single-cell technologies, analysis and visualization tools, and tissue preparation methods. We advocate for the creation of a centralized, open-access database to house plant single-cell data. Finally, we consider how such efforts should balance the need for deep characterization of select model species while still capturing the diversity in the plant kingdom. Investments into the development of methods, their application to relevant species, and the creation of resources to support data dissemination will enable groundbreaking insights to propel energy and environmental science forward.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1819183

Journal Information:: Communications Biology, Journal Name: Communications Biology Journal Issue: 1 Vol. 4; ISSN 2399-3642

Publisher:: Springer NatureCopyright Statement

Country of Publication:: United States

Language:: English

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