• Login
    View Item 
    •   Home
    • Research
    • Preprints
    • View Item
    •   Home
    • Research
    • Preprints
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of KAUSTCommunitiesIssue DateSubmit DateThis CollectionIssue DateSubmit Date

    My Account

    Login

    Quick Links

    Open Access PolicyORCID LibguidePlumX LibguideSubmit an Item

    Statistics

    Display statistics

    Massively parallel single-cell genome sequencing enables high-resolution analysis of soil and marine microorganisms

    • CSV
    • RefMan
    • EndNote
    • BibTex
    • RefWorks
    Thumbnail
    Name:
    2020.03.05.962001v1.full.pdf
    Size:
    1.415Mb
    Format:
    PDF
    Download
    Type
    Preprint
    Authors
    Nishikawa, Yohei
    Kogawa, Masato
    Hosokawa, Masahito cc
    Mineta, Katsuhiko cc
    Takahashi, Kai
    Sakanashi, Chikako
    Behzad, Hayedeh
    Gojobori, Takashi cc
    Takeyama, Haruko cc
    KAUST Department
    Biological and Environmental Sciences and Engineering (BESE) Division
    Bioscience Program
    Computational Bioscience Research Center (CBRC)
    Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
    KAUST Grant Number
    URF/1/1976/03/01
    Date
    2020-03-06
    Permanent link to this record
    http://hdl.handle.net/10754/662102
    
    Metadata
    Show full item record
    Abstract
    To improve our understanding of the environmental microbiome, we developed a single-cell genome sequencing platform, named SAG-gel, which utilizes gel beads for single-cell isolation, cell lysis, and whole genome amplification (WGA) for sequencing. SAG-gel enables serial, parallel and independent reactions of > 100,000 single cells in a single tube, delivering high-quality genome recovery with storable randomized single-cell genome libraries. From soil and marine environmental sources, we acquired 734 partial genomes that are recapitulated in 231 species, 35% of which were assigned as high-to-medium qualities. We found that each genome to be almost unique and 98.7% of them were newly identified, implying the complex genetic diversities across 44 phyla. The various metabolic capabilities including virulence factors and biosynthetic gene clusters were found across the lineages at single-cell resolution. This technology will accelerate the accumulation of reference genomes of uncharacterized environmental microbes and provide us new insights for their roles.
    Citation
    Nishikawa, Y., Kogawa, M., Hosokawa, M., Mineta, K., Takahashi, K., Sakanashi, C., … Takeyama, H. (2020). Massively parallel single-cell genome sequencing enables high-resolution analysis of soil and marine microorganisms. doi:10.1101/2020.03.05.962001
    Sponsors
    This work was supported by JST-PRESTO grant number JPMJPR15FA, MEXT KAKENHI grant numbers 18H01801 and 17H06158, and the funding from King Abdullah University of Science and Technology (KAUST), under award numbers URF/1/1976/03/01, URF/1/1976/17/01, URF/1/1976/20/01 and FCS/1/3326/01/01. The super-computing resource was provided by the Human Genome Center (University of Tokyo).
    Publisher
    Cold Spring Harbor Laboratory
    DOI
    10.1101/2020.03.05.962001
    Additional Links
    http://biorxiv.org/lookup/doi/10.1101/2020.03.05.962001
    ae974a485f413a2113503eed53cd6c53
    10.1101/2020.03.05.962001
    Scopus Count
    Collections
    Biological and Environmental Sciences and Engineering (BESE) Division; Preprints; Bioscience Program; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division

    entitlement

     
    DSpace software copyright © 2002-2021  DuraSpace
    Quick Guide | Contact Us | Send Feedback
    Open Repository is a service hosted by 
    Atmire NV
     

    Export search results

    The export option will allow you to export the current search results of the entered query to a file. Different formats are available for download. To export the items, click on the button corresponding with the preferred download format.

    By default, clicking on the export buttons will result in a download of the allowed maximum amount of items. For anonymous users the allowed maximum amount is 50 search results.

    To select a subset of the search results, click "Selective Export" button and make a selection of the items you want to export. The amount of items that can be exported at once is similarly restricted as the full export.

    After making a selection, click one of the export format buttons. The amount of items that will be exported is indicated in the bubble next to export format.