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Printing Microbial Dark Matter: Using Single Cell Dispensing and Genomics to Investigate the Patescibacteria/Candidate Phyla Radiation

Wiegand, Sandra 1; Dam, Hang T. 1; Riba, Julian; Vollmers, John 1; Kaster, Anne-Kristin 1,2
1 Institut für Biologische Grenzflächen (IBG), Karlsruher Institut für Technologie (KIT)
2 Institut für Angewandte Biowissenschaften (IAB), Karlsruher Institut für Technologie (KIT)


As of today, the majority of environmental microorganisms remain uncultured. They are therefore referred to as “microbial dark matter.” In the recent past, cultivation-independent methods like single-cell genomics (SCG) enabled the discovery of many previously unknown microorganisms, among them the Patescibacteria/Candidate Phyla Radiation (CPR). This approach was shown to be complementary to metagenomics, however, the development of additional and refined sorting techniques beyond the most commonly used fluorescence-activated cell sorting (FACS) is still desirable to enable additional downstream applications. Adding image information on the number and morphology of sorted cells would be beneficial, as would be minimizing cell stress caused by sorting conditions such as staining or pressure. Recently, a novel cell sorting technique has been developed, a microfluidic single-cell dispenser, which assesses the number and morphology of the cell in each droplet by automated light microscopic processing. Here, we report for the first time the successful application of the newly developed single-cell dispensing system for label-free isolation of individual bacteria from a complex sample retrieved from a wastewater treatment plant, demonstrating the potential of this technique for single cell genomics and other alternative downstream applications. ... mehr

Verlagsausgabe §
DOI: 10.5445/IR/1000135771
Veröffentlicht am 22.07.2021
DOI: 10.3389/fmicb.2021.635506
Zitationen: 7
Web of Science
Zitationen: 7
Zitationen: 9
Cover der Publikation
Zugehörige Institution(en) am KIT Institut für Angewandte Biowissenschaften (IAB)
Institut für Biologische Grenzflächen (IBG)
Publikationstyp Zeitschriftenaufsatz
Publikationsjahr 2021
Sprache Englisch
Identifikator ISSN: 1664-302X
KITopen-ID: 1000135771
HGF-Programm 43.33.11 (POF IV, LK 01) Adaptive and Bioinstructive Materials Systems
Erschienen in Frontiers in microbiology
Verlag Frontiers Media SA
Band 12
Seiten Art.-Nr.: 635506
Bemerkung zur Veröffentlichung Gefördert durch den KIT-Publikationsfonds
Vorab online veröffentlicht am 16.06.2021
Schlagwörter single amplified genome (SAG), co-assembled genomes (CAGs), metagenomics, metagenome-assembled genomes (MAGs), bacteria
Nachgewiesen in Scopus
Web of Science
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