PeerJ Editor & Author

2,735 Points

Contributions by role

Contributions by subject area

Jonathan A Eisen

PeerJ Editor & Author

Summary

Full Professor, University of California, Davis (Depts. of Medical Microbiology and Immunology and Evolution and Ecology) and Adjunct Scientist DOE Joint Genome Institute.

Obsessed with microbes, the Redsox, open science, and STEM diversity.

Bioinformatics Biosphere Interactions Climate Change Biology Computational Biology Ecology Ecotoxicology Evolutionary Studies Genetics Genomics Infectious Diseases Microbiology

Editorial Board Member

PeerJ - the Journal of Life & Environmental Sciences

Past or current institution affiliations

UC Davis

Work details

Professor

University of California, Davis

Websites

PeerJ Contributions

October 20, 2020

Isolation and sequence-based characterization of a koala symbiont: Lonepinella koalarum

Katherine E. Dahlhausen, Guillaume Jospin, David A. Coil, Jonathan A. Eisen, Laetitia G.E. Wilkins

https://doi.org/10.7717/peerj.10177 PubMed 33150080

June 9, 2020

Bacterial communities associated with cell phones and shoes

David A. Coil, Russell Y. Neches, Jenna M. Lang, Guillaume Jospin, Wendy E. Brown, Darlene Cavalier, Jarrad Hampton-Marcell, Jack A. Gilbert, Jonathan A. Eisen

https://doi.org/10.7717/peerj.9235 PubMed 32551196

May 23, 2018

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

Katti R. Horng, Holly H. Ganz, Jonathan A. Eisen, Stanley L. Marks

https://doi.org/10.7717/peerj.4827 PubMed 29844978

March 12, 2018

Characterization of shifts of koala (Phascolarctos cinereus) intestinal microbial communities associated with antibiotic treatment

Katherine E. Dahlhausen, Ladan Doroud, Alana J. Firl, Adam Polkinghorne, Jonathan A. Eisen

https://doi.org/10.7717/peerj.4452 PubMed 29576947

December 5, 2017

A microbial survey of the International Space Station (ISS)

Jenna M. Lang, David A. Coil, Russell Y. Neches, Wendy E. Brown, Darlene Cavalier, Mark Severance, Jarrad T. Hampton-Marcell, Jack A. Gilbert, Jonathan A. Eisen

https://doi.org/10.7717/peerj.4029 PubMed 29492330

August 16, 2017

Microbiome succession during ammonification in eelgrass bed sediments

Cassandra L. Ettinger, Susan L. Williams, Jessica M. Abbott, John J. Stachowicz, Jonathan A. Eisen

https://doi.org/10.7717/peerj.3674 PubMed 28828269

April 27, 2017

Microbial communities in sediment from Zostera marina patches, but not the Z. marina leaf or root microbiomes, vary in relation to distance from patch edge

Cassandra L. Ettinger, Sofie E. Voerman, Jenna M. Lang, John J. Stachowicz, Jonathan A. Eisen

https://doi.org/10.7717/peerj.3246 PubMed 28462046

March 22, 2016

Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

David A. Coil, Russell Y. Neches, Jenna M. Lang, Wendy E. Brown, Mark Severance, Darlene Cavalier, Jonathan A. Eisen

https://doi.org/10.7717/peerj.1842 PubMed 27019789

November 12, 2015

Porphyrobacter mercurialis sp. nov., isolated from a stadium seat and emended description of the genus Porphyrobacter

David A. Coil, Jennifer C. Flanagan, Andrew Stump, Alexandra Alexiev, Jenna M. Lang, Jonathan A. Eisen

https://doi.org/10.7717/peerj.1400 PubMed 26587357

May 14, 2015

Swabs to genomes: a comprehensive workflow

Madison I. Dunitz, Jenna M. Lang, Guillaume Jospin, Aaron E. Darling, Jonathan A. Eisen, David A. Coil

https://doi.org/10.7717/peerj.960 PubMed 26020012

December 9, 2014

The microbes we eat: abundance and taxonomy of microbes consumed in a day’s worth of meals for three diet types

Jenna M. Lang, Jonathan A. Eisen, Angela M. Zivkovic

https://doi.org/10.7717/peerj.659 PubMed 25538865

May 27, 2014

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

Christopher W. Beitel, Lutz Froenicke, Jenna M. Lang, Ian F. Korf, Richard W. Michelmore, Jonathan A. Eisen, Aaron E. Darling

https://doi.org/10.7717/peerj.415 PubMed 24918035

January 9, 2014

PhyloSift: phylogenetic analysis of genomes and metagenomes

Aaron E. Darling, Guillaume Jospin, Eric Lowe, Frederick A. Matsen, Holly M. Bik, Jonathan A. Eisen

https://doi.org/10.7717/peerj.243 PubMed 24482762

August 30, 2019 - Version: 1

Host-associated microbiomes and their roles in marine ecosystem functions

Laetitia G.E. Wilkins, Matthieu Leray, Benedict Yuen, Raquel Peixoto, Tiago J. Pereira, Holly M. Bik, David A. Coil, J. Emmett Duffy, Edward Allen Herre, Harilaos Lessios, Noelle Lucey, Luis C. Mejia, Aaron O'Dea, Douglas B. Rasher, Koty Sharp, Emilia M. Sogin, Robert W. Thacker, Rebecca Vega Thurber, William T. Wcislo, Elizabeth G. Wilbanks, Jonathan A. Eisen

https://doi.org/10.7287/peerj.preprints.27930v1

February 1, 2019 - Version: 1

Bacterial communities associated with cell phones and shoes

David A Coil, Russell Y Neches, Jenna M Lang, Guillaume Jospin, Wendy E Brown, Darlene Cavalier, Jarrad Hampton-Marcell, Jack A Gilbert, Jonathan A Eisen

https://doi.org/10.7287/peerj.preprints.27514v1

May 3, 2018 - Version: 1

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

Katti R Horng, Holly H Ganz, Jonathan A Eisen, Stanley L Marks

https://doi.org/10.7287/peerj.preprints.26912v1

April 29, 2017 - Version: 1

Microbiome succession during ammonification in eelgrass bed sediments

Cassandra L Ettinger, Susan L Williams, Jessica M Abbott, John J Stachowicz, Jonathan A Eisen

https://doi.org/10.7287/peerj.preprints.2956v1

January 16, 2016 - Version: 1

Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

David A Coil, Russell Y Neches, Jenna M Lang, Wendy E Brown, Mark Severance, Darlene Darlene Cavalier, Jonathan A Eisen

https://doi.org/10.7287/peerj.preprints.1654v1

January 29, 2015 - Version: 2

Swabs to genomes: a comprehensive workflow

Madison I Dunitz, Jenna M Lang, Guillaume Jospin, Aaron E Darling, Jonathan A Eisen, David A Coil

https://doi.org/10.7287/peerj.preprints.453v2

February 28, 2014 - Version: 1

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

Christopher W. Beitel, Lutz Froenicke, Jenna M. Lang, Ian F. Korf, Richard W. Michelmore, Jonathan A. Eisen, Aaron E. Darling

https://doi.org/10.7287/peerj.preprints.260v1

Academic Editor on

January 10, 2017

Microbial communities mediating algal detritus turnover under anaerobic conditions

Jessica M. Morrison, Chelsea L. Murphy, Kristina Baker, Richard M. Zamor, Steve J. Nikolai, Shawn Wilder, Mostafa S. Elshahed, Noha H. Youssef

https://doi.org/10.7717/peerj.2803 PubMed 28097050

December 22, 2016

Exploring the cockatiel (Nymphicus hollandicus) fecal microbiome, bacterial inhabitants of a worldwide pet

Luis David Alcaraz, Apolinar M. Hernández, Mariana Peimbert

https://doi.org/10.7717/peerj.2837 PubMed 28028487

February 8, 2016

PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes

Ivan Gregor, Johannes Dröge, Melanie Schirmer, Christopher Quince, Alice C. McHardy

https://doi.org/10.7717/peerj.1603 PubMed 26870609

September 23, 2014

Culture-independent detection and characterisation of Mycobacterium tuberculosis and M. africanum in sputum samples using shotgun metagenomics on a benchtop sequencer

Emma L. Doughty, Martin J. Sergeant, Ifedayo Adetifa, Martin Antonio, Mark J. Pallen

https://doi.org/10.7717/peerj.585 PubMed 25279265

April 10, 2014

Automated electronic medical record sepsis detection in the emergency department

Su Q. Nguyen, Edwin Mwakalindile, James S. Booth, Vicki Hogan, Jordan Morgan, Charles T. Prickett, John P. Donnelly, Henry E. Wang

https://doi.org/10.7717/peerj.343 PubMed 24765577

October 22, 2013

PhyBin: binning trees by topology

Ryan R. Newton, Irene L.G. Newton

https://doi.org/10.7717/peerj.187 PubMed 24167782