Evidence map›Paper›PMID 39578464›Full record

ArticleScientific data2024

Microbial Metagenomes Across a Complete Phytoplankton Bloom Cycle: High-Resolution Sampling Every 4 Hours Over 22 Days.

Brook L Nunn, Emma Timmins-Schiffman, Miranda C Mudge, Deanna L Plubell, Gabriella Chebli, Julia Kubanek, Michael Riffle, William S Noble, Elizabeth Harvey, Tasman A Nunn and 16 more

Erratum issuedAbstract readDataset
In one paragraph

Article in Scientific data, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Carafe enables high qualitybioRxiv : the preprint server for biology · 2025
    Article
  5. Article
  6. Article
  7. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

26 authors.

Brook L NunnUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA. brookh@uw.edu.ORCID 0000-0002-7361-4359
Emma Timmins-SchiffmanUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA.ORCID 0000-0002-2478-6541
Miranda C MudgeUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA.
Deanna L PlubellUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA.
Gabriella ChebliGeorgia Institute of Technology, School of Biological Sciences and School of Chemistry & Biochemistry, Parker H. Petit Institute for Bioengineering and Bioscience, Atlanta, GA, 30332, USA.ORCID 0000-0002-4533-7470
Julia KubanekGeorgia Institute of Technology, School of Biological Sciences and School of Chemistry & Biochemistry, Parker H. Petit Institute for Bioengineering and Bioscience, Atlanta, GA, 30332, USA.ORCID 0000-0003-4482-1831
Michael RiffleUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA.ORCID 0000-0003-1633-8607
William S NobleUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA.
Elizabeth HarveyDepartment of Biological Sciences, University of New Hampshire, Durham, NH, 03824, USA.
Tasman A NunnUniversity of Washington, Department of Genome Sciences, Seattle, WA, 98195, USA.
Tatiana RynearsonSchool of Oceanography, University of Rhode Island, Narragansett, Rhode Island, USA.
Marcel HuntemannDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-1284-3748
Kurt LaButtiDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Brian FosterDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Bryce FosterDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Simon RouxDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Krishnaveni PalaniappanDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Supratim MukherjeeDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-6322-2271
T B K ReddyDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-0871-5567
Chris DaumDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0003-3895-5892
Alex CopelandDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-3971-5439
I-Min A ChenDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Natalia N IvanovaDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-5802-9485
Nikos C KyrpidesDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-6131-0462
Tijana Glavina Del RioDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Emiley A Eloe-FadroshDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-8162-1276

Funding

Using microbiomes as microsensors to forecast toxic algae bloomsR21ES034337 · NIEHS · UNIVERSITY OF WASHINGTON · PI NUNN, BROOK LEANNE · 2022 to 2023
$443k
Modeling Microbiome Peptides Using Metaproteomics for the Prediction of Harmful Algal BloomsF31ES032733 · NIEHS · UNIVERSITY OF WASHINGTON · PI MUDGE, MIRANDA · 2021 to 2023
$125k
NIEHS NIH HHS F31 ES032733NIEHS NIH HHS R21 ES034337NSF | BIO | Division of Integrative Organismal Systems (IOS) 2041497NSF | BIO | Division of Integrative Organismal Systems (IOS) IOS 2041497U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) R21ES034337-01
6 · The paper itself

Abstract

In May and June of 2021, marine microbial samples were collected for DNA sequencing in East Sound, WA, USA every 4 hours for 22 days. This high temporal resolution sampling effort captured the last 3 days of a Rhizosolenia sp. bloom, the initiation and complete bloom cycle of Chaetoceros socialis (8 days), and the following bacterial bloom (2 days). Metagenomes were completed on the time series, and the dataset includes 128 size-fractionated microbial samples (0.22-1.2 µm), providing gene abundances for the dominant members of bacteria, archaea, and viruses. This dataset also has time-matched nutrient analyses, flow cytometry data, and physical parameters of the environment at a single point of sampling within a coastal ecosystem that experiences regular bloom events, facilitating a range of modeling efforts that can be leveraged to understand microbial community structure and their influences on the growth, maintenance, and senescence of phytoplankton blooms.

Indexed as

ArchaeaBacteriaMetagenomePhytoplanktonEutrophicationMicrobiotaViruses

Identifiers

PMID39578464
PMCPMC11584781

What OpenQuestion holds

Textmetadata
LicenceCC BY
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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 OpenQuestion graph.