Visitors   Views   Downloads
NOT PEER-REVIEWED
"PeerJ Preprints" is a venue for early communication or feedback before peer review. Data may be preliminary.

A peer-reviewed article of this Preprint also exists.

View peer-reviewed version

Supplemental Information

16S Sanger sequence data for contaminating organisms

DOI: 10.7287/peerj.preprints.542v2/supp-1

Additional Information

Competing Interests

Author Emily Tung works for Pivot Bio, a startup company affiliated with the QB3 incubator, which is itself affiliated with UCSF.

Author Contributions

Russell Y Neches conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Kaitlin J. Flynn conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Luis Zaman conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Emily Tung conceived and designed the experiments, reviewed drafts of the paper, designed the initial experiment.

Nicholas Pudlo performed the experiments, performed DNA sequencing and identification.

Animal Ethics

The following information was supplied relating to ethical approvals (i.e., approving body and any reference numbers):

Mice were housed in the University Laboratory Animal Medicine Facility at the University of Michigan Medical School under specific-pathogen-free conditions. The University Committee on Use and Care of Animals approved all experiments conducted in this study.

Principal Investigator: Michele Swanson

Protocol: PRO00005100

Protocol Title: Legionella Pneumophila, A Genetic Probe of Macrophage Function

Approval Period: 10/2/2013 to 10/2/2016

DNA Deposition

The following information was supplied regarding the deposition of DNA sequences:

Sequencing was for identification only. Results were nearly 100% identical to Propionibacterium acnes and Staphylococcus epidermidis. There are many such sequences on GenBank already. For example, NR_074675.1 and JF769744.1 matched our sequences to within the error rate of the sequencing technology. Due to this profound lack of novelty, we decided not submit our sequence data to any databases. However, we will provide it as a data supplement for the paper. It consists of three Sanger sequences, and should not present a problem in terms of size.

Data Deposition

The following information was supplied regarding data availability:

The raw data has been supplied as a supplementary file.

Funding

Russell Neches was supported by an Alfred P. Sloan Foundation grant to Jonathan Eisen. Luis Zaman was funded by an AT&T Research Labs Fellowship and the BEACON Center for the Study of Evolution in Action. Kaitlin J. Flynn was supported by a University of Michigan Rackham Merit Fellowship and the Molecular Mechanisms of Microbial Pathogenesis training program (NIH T32 AI007528). This material is based in part upon work supported by the National Science Foundation under Cooperative Agreement No. DBI-0939454. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

Feedback on other revisions


Add your feedback

Before adding feedback, consider if it can be asked as a question instead, and if so then use the Question tab. Pointing out typos is fine, but authors are encouraged to accept only substantially helpful feedback.

Some Markdown syntax is allowed: _italic_ **bold** ^superscript^ ~subscript~ %%blockquote%% [link text](link URL)
 
By posting this you agree to PeerJ's commenting policies