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Supplemental Information

Supplemental Figures and Tables

DOI: 10.7287/peerj.preprints.554v1/supp-1

Supplemental Table S13. Lineage-specific completeness and contamination estimates for isolate genomes from large-scale sequencing initiatives

DOI: 10.7287/peerj.preprints.554v1/supp-2

Supplemental Table S16. Lineage-specific completeness and contamination estimates for genomes annotated as finished at IMG, along with predicted translation tables and calculated coding density

DOI: 10.7287/peerj.preprints.554v1/supp-3

Supplemental Table S17. Lineage-specific completeness and contamination estimates for single-cell genomes from the GEBA-MDM initiative along with traditional assembly statistics

DOI: 10.7287/peerj.preprints.554v1/supp-4

Supplemental Table S18. Lineage-specific completeness and contamination estimates for population genomes, plasmids, and phage recovered from metagenomic datasets

DOI: 10.7287/peerj.preprints.554v1/supp-5

Supplemental Table S19. Completeness and contamination estimates for population genomes recovered from an acetate-amended aquifer

DOI: 10.7287/peerj.preprints.554v1/supp-6

Additional Information

Competing Interests

The authors declare they have no competing interests.

Author Contributions

Donovan H Parks conceived and designed the experiments, performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper, contributions to source code and program design.

Michael Imelfort contributed reagents/materials/analysis tools, reviewed drafts of the paper, contributions to source code and program design.

Connor T Skennerton contributed reagents/materials/analysis tools, reviewed drafts of the paper, contributions to source code and program design.

Philip Hugenholtz analyzed the data, wrote the paper, reviewed drafts of the paper.

Gene W Tyson analyzed the data, wrote the paper, reviewed drafts of the paper.

Data Deposition

The following information was supplied regarding the deposition of related data:

Population genomes and isolate genomes recently removed from public repositories have been made available through the ACE website:

http://www.ecogenomic.org/checkm/public-data

Funding

Many of the genomes considered in this manuscript were produced by the US Department of Energy Joint Genome Institute http://www.jgi.doe.gov/ in collaboration with the user community. DHP is supported by the Natural Sciences and Engineering Research Council of Canada. MI is supported by a Great Barrier Reef Foundation Postdoctoral Research Fellowship through the ReFuGe2020 consortium. CTS was supported by an Australian Postgraduate Award from the Australian Research Council. GWT and PH are supported by a Discovery Outstanding Researcher Award (DORA) and Queen Elizabeth II Fellowship from the Australian Research Council, grants DP120103498 and DP1093175, respectively. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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