Evidence map›Paper›PMID 42429456›Full record

ArticlemSphere2026

Exploring life's hidden majority: microbial dark matter symposium highlights.

Zachary N Flamholz, Sayali A Mulay, Victor Leshyk, J Gregory Caporaso, Jonathan A Eisen, Libusha Kelly, Karen G Lloyd, Magdalena R Osburn, Mircea Podar, Simon Roux and 10 more

Abstract readConference Proceedings
In one paragraph

Article in mSphere, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

20 authors.

Zachary N FlamholzAlbert Einstein College of Medicine, Bronx, New York, USA.
Sayali A MulayUniversity of California, Irvine, California, USA.ORCID 0000-0002-1406-6292
Victor LeshykNorthern Arizona University, Flagstaff, Arizona, USA.
J Gregory CaporasoNorthern Arizona University, Flagstaff, Arizona, USA.ORCID 0000-0002-8865-1670
Jonathan A EisenUniversity of California, Davis, California, USA.
Libusha KellyAlbert Einstein College of Medicine, Bronx, New York, USA.
Karen G LloydUniversity of Southern California, Los Angeles, California, USA.
Magdalena R OsburnNorthwestern University, Evanston, Illinois, USA.
Mircea PodarOak Ridge National Laboratory, Oak Ridge, Tennessee, USA.ORCID 0000-0003-2776-0205
Simon RouxU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, California, USA.ORCID 0000-0002-5831-5895
S Aaron B RegbergNASA Johnson Space Center, Houston, Texas, USA.
S Emil RuffThe Marine Biological Laboratory, Woods Hole, Massachusetts, USA.
Braden TierneyThe Two Frontiers Project, Fort Collins, Colorado, USA.ORCID 0000-0002-7533-8802
Scott TigheUniversity of Vermont, Burlington, Vermont, USA.
Elizabeth Trembath-ReichertArizona State University, Tempe, Arizona, USA.
Kasthuri VenkateswaranNASA Jet Propulsion Laboratory, Pasadena, California, USA.ORCID 0000-0002-6742-0873
Tanja WoykeU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, California, USA.ORCID 0000-0002-9485-5637
Kristopher M LockenZymo Research Corporation, Irvine, California, USA.ORCID 0009-0001-4979-7052
Haley M SapersNorthern Arizona University, Flagstaff, Arizona, USA.ORCID 0000-0002-1797-1722
Katrine WhitesonUniversity of California, Irvine, California, USA.ORCID 0000-0002-5423-6014

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The Microbial Dark Matter Symposium held on August 28-29, 2025, in Laguna Beach, Orange County, CA, convened a multidisciplinary group of scientists to address the vast unknowns in microbial life-from uncultured taxa and uncharacterized proteins to elusive viruses and spacefaring microbes. Set against a scenic coastal backdrop, the symposium highlighted advances in single-cell genomics, proximity ligation sequencing, and artificial intelligence-ready bioinformatics, while also probing the limits of microbial persistence, metabolism, and ecological distribution. Sessions explored microbial dark matter from multiple dimensions: cultivability, where new strategies are enabling recovery of elusive microbes; functional ambiguity, where metagenomic dark zones are illuminated by computational annotation; and genomic representation, where single-cell methods bridge gaps left by shotgun community sequencing. Researchers shared breakthroughs in identifying atmospheric microbiomes, "dark oxygen" production in groundwater ecosystems, and microbial survival on the International Space Station. The symposium emphasized integration of methods, disciplines, and ecosystems, advancing a collective push to illuminate the microbial dark matter on Earth and beyond. By highlighting emerging tools, pressing questions, and cross-domain insights, the symposium underscored the need for collaborative, open, and adaptive approaches to study the microbial unknown. The meeting marks a pivotal moment in microbiology, where cultivating knowledge of the uncultivated promises transformative understanding of life, everywhere.

Indexed as

MicrobiotaBacteriaComputational BiologyEcosystemMetagenomicsmeeting highlightmetagenomicsmicrobial dark matter

Identifiers

PMID42429456
PMCPMC13410755

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.