Evidence map›Paper›PMID 35790741›Full record

ArticleNature communications2022

Co-occurrence networks reveal more complexity than community composition in resistance and resilience of microbial communities.

Cheng Gao, Ling Xu, Liliam Montoya, Mary Madera, Joy Hollingsworth, Liang Chen, Elizabeth Purdom, Vasanth Singan, John Vogel, Robert B Hutmacher and 4 more

Abstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 126 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
126citing papers in PubMed, 1 pooled it
–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

126 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Effect ofNutrients · 2026
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  5. Enhanced Endophytic Colonization of Flavobacterium Promotes Plant Resistance to Fusarium Wilt.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
    Article
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66 more citing papers are in PubMed but not listed here.

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

14 authors.

Cheng Gao *State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China. gaoc@im.ac.cn.ORCID 0000-0003-2522-7909
Ling Xu *Department of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA.ORCID 0000-0001-7974-3541
Liliam MontoyaDepartment of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA.ORCID 0000-0002-9311-9398
Mary MaderaDepartment of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA.
Joy HollingsworthUniversity of California Kearney Agricultural Research & Extension Center, Parlier, CA, 93648, USA.
Liang ChenCAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China.
Elizabeth PurdomDepartment of Statistics, University of California, Berkeley, CA, 94720, USA.ORCID 0000-0001-9455-7990
Vasanth SinganDepartment of Energy Joint Genome Institute, 1 Cyclotron Rd., Berkeley, CA, 94720, USA.ORCID 0000-0002-9983-5707
John VogelDepartment of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA.
Robert B HutmacherUC Davis Department of Plant Sciences, University of California West Side Research & Extension Center, Five Points, CA, 93624, US.
Jeffery A DahlbergUniversity of California Kearney Agricultural Research & Extension Center, Parlier, CA, 93648, USA.ORCID 0000-0003-1599-0644
Devin Coleman-DerrDepartment of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA.
Peggy G LemauxDepartment of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA.
John W TaylorDepartment of Plant and Microbial Biology, University of California, Berkeley, CA, 94720, USA. jtaylor@berkeley.edu.ORCID 0000-0002-5794-7700

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Plant response to drought stress involves fungi and bacteria that live on and in plants and in the rhizosphere, yet the stability of these myco- and micro-biomes remains poorly understood. We investigate the resistance and resilience of fungi and bacteria to drought in an agricultural system using both community composition and microbial associations. Here we show that tests of the fundamental hypotheses that fungi, as compared to bacteria, are (i) more resistant to drought stress but (ii) less resilient when rewetting relieves the stress, found robust support at the level of community composition. Results were more complex using all-correlations and co-occurrence networks. In general, drought disrupts microbial networks based on significant positive correlations among bacteria, among fungi, and between bacteria and fungi. Surprisingly, co-occurrence networks among functional guilds of rhizosphere fungi and leaf bacteria were strengthened by drought, and the same was seen for networks involving arbuscular mycorrhizal fungi in the rhizosphere. We also found support for the stress gradient hypothesis because drought increased the relative frequency of positive correlations.

Indexed as

MicrobiotaMycorrhizaeBacteriaPlantsRhizosphereSoil Microbiology

Identifiers

PMID35790741
PMCPMC9256619

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Registered trials

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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.