Whole genome sequencing of cyanobacterium Nostoc sp. CCCryo 231-06 using microfluidic single cell technology
Yuguang Liu,
Patricio Jeraldo,
William Herbert,
Samantha McDonough,
Bruce Eckloff,
Dirk Schulze-Makuch,
Jean-Pierre de Vera,
Charles Cockell,
Thomas Leya,
Mickael Baqué,
Jin Jen,
Marina Walther-Antonio
Affiliations
Yuguang Liu
Department of Surgery, Division of Surgical Research, Mayo Clinic, Rochester, MN 55905, USA; Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA; Department of Immunology, Mayo Clinic, Rochester, MN 55905, USA
Patricio Jeraldo
Department of Surgery, Division of Surgical Research, Mayo Clinic, Rochester, MN 55905, USA; Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
William Herbert
Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA; Mayo Clinic Graduate School of Biomedical Sciences, Mayo Clinic, Rochester, MN 55905, USA
Samantha McDonough
Medical Genome Facility, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
Bruce Eckloff
Medical Genome Facility, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
Dirk Schulze-Makuch
Astrobiology Group, Center for Astronomy and Astrophysics, Technische Universität Berlin, Hardenbergstr. 36, 10623 Berlin, Germany; GFZ German Research Centre for Geosciences, 14473 Potsdam, Germany; Department of Experimental Limnology, Leibniz Institute of Groundwater Ecology and Inland Fisheries (IGB), 16775 Stechlin, Germany; School of the Environment, Washington State University, Pullman, WA 99163, USA
Jean-Pierre de Vera
Space Operations and Astronaut Training, Microgravity User Support Center (MUSC), German Aerospace Center (DLR), Linder Höhe, 51147 Köln, Germany
Charles Cockell
School of Physics and Astronomy, University of Edinburgh, Edinburgh EH9 3FD, UK
Thomas Leya
Fraunhofer Institute for Cell Therapy and Immunology, Branch Bioanalytics and Bioprocesses (IZI-BB), Extremophile Research & Biobank CCCryo, 14476 Potsdam, Germany
Mickael Baqué
Astrobiological Laboratories, Planetary Laboratories Department, Institute of Planetary Research, German Aerospace Center (DLR), 12489 Berlin, Germany
Jin Jen
Medical Genome Facility, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
Marina Walther-Antonio
Department of Surgery, Division of Surgical Research, Mayo Clinic, Rochester, MN 55905, USA; Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA; Department of Obstetrics and Gynecology, Mayo Clinic, Rochester, MN 55905, USA; Corresponding author
Summary: The Nostoc sp. strain CCCryo 231-06 is a cyanobacterial strain capable of surviving under extreme conditions and thus is of great interest for the astrobiology community. The knowledge of its complete genome sequence would serve as a guide for further studies. However, a major concern has been placed on the effects of contamination on the quality of sequencing data without a reference genome. Here, we report the use of microfluidic technology combined with single cell sequencing and de novo assembly to minimize the contamination and recover the complete genome of the Nostoc strain CCCryo 231-06 with high quality. 100% of the whole genome was recovered with all contaminants removed and a strongly supported phylogenetic tree. The data reported can be useful for comparative genomics for phylogenetic and taxonomic studies. The method used in this work can be applied to studies that require high-quality assemblies of genomes of unknown microorganisms.
