Evidence map›Paper›PMID 31844298›Full record

ArticleNature microbiology2020

Control of nitrogen fixation in bacteria that associate with cereals.

Min-Hyung Ryu, Jing Zhang, Tyler Toth, Devanshi Khokhani, Barney A Geddes, Florence Mus, Amaya Garcia-Costas, John W Peters, Philip S Poole, Jean-Michel Ané and 1 more

Open access · greenAbstract read
In one paragraph

Article in Nature microbiology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 93 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
93citing papers in PubMed, 1 pooled it
29.4field-weighted citation impact, top 1% of its field
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

93 citing papers in PubMed, 1 synthesis or guideline pooled it, 224 citations in OpenAlex.

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33 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

11 authors at 5 institutions in 2 countries.

Min-Hyung RyuSynthetic Biology Center, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.
Jing ZhangSynthetic Biology Center, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.
Tyler TothSynthetic Biology Center, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID http://orcid.org/0000-0001-7156-6210
Devanshi KhokhaniDepartments of Bacteriology and Agronomy, University of Wisconsin-Madison, Madison, WI, USA.
Barney A GeddesDepartment of Plant Sciences, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0001-8309-2083
Florence MusDepartment of Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA.
Amaya Garcia-CostasDepartment of Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA.
John W PetersDepartment of Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA.
Philip S PooleDepartment of Plant Sciences, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0001-5087-6455
Jean-Michel AnéDepartments of Bacteriology and Agronomy, University of Wisconsin-Madison, Madison, WI, USA.ORCID http://orcid.org/0000-0002-3128-9439
Christopher A VoigtSynthetic Biology Center, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA. cavoigt@gmail.com.ORCID http://orcid.org/0000-0003-0844-4776
Massachusetts Institute of Technology · USMontana State University · USUniversity of Oxford · GBUniversity of Wisconsin–Madison · USColorado State University Pueblo · US

Funding

TRAINING IN BIOTECHNOLOGY: EMPHASIS ON PROTEIN CHEMISTRYT32GM008336 · NIGMS · WASHINGTON STATE UNIVERSITY · PI CALL, DOUGLAS R. · 1989 to 2023
$8.9M
IMPACT OF TS PROPHYLAXIS ON ANTIFOLATE RESISTANT MALARIAK01TW000014 · FIC · UNIVERSITY OF MARYLAND BALTIMORE · PI KUBLIN, JAMES G. · 2000 to 2000
$103k
NIGMS NIH HHS T32 GM008336
6 · The paper itself

Abstract

Legumes obtain nitrogen from air through rhizobia residing in root nodules. Some species of rhizobia can colonize cereals but do not fix nitrogen on them. Disabling native regulation can turn on nitrogenase expression, even in the presence of nitrogenous fertilizer and low oxygen, but continuous nitrogenase production confers an energy burden. Here, we engineer inducible nitrogenase activity in two cereal endophytes (Azorhizobium caulinodans ORS571 and Rhizobium sp. IRBG74) and the well-characterized plant epiphyte Pseudomonas protegens Pf-5, a maize seed inoculant. For each organism, different strategies were taken to eliminate ammonium repression and place nitrogenase expression under the control of agriculturally relevant signals, including root exudates, biocontrol agents and phytohormones. We demonstrate that R. sp. IRBG74 can be engineered to result in nitrogenase activity under free-living conditions by transferring a nif cluster from either Rhodobacter sphaeroides or Klebsiella oxytoca. For P. protegens Pf-5, the transfer of an inducible cluster from Pseudomonas stutzeri and Azotobacter vinelandii yields ammonium tolerance and higher oxygen tolerance of nitrogenase activity than that from K. oxytoca. Collectively, the data from the transfer of 12 nif gene clusters between 15 diverse species (including Escherichia coli and 12 rhizobia) help identify the barriers that must be overcome to engineer a bacterium to deliver a high nitrogen flux to a cereal crop.

Indexed as

Nitrogen FixationAzorhizobium caulinodansBacterial ProteinsEdible GrainEscherichia coliGenes, BacterialMetabolic EngineeringMultigene FamilyNitrogenasePlant Root NodulationPseudomonasRhizobiumSymbiosisBacterial ProteinsNitrogenase

Identifiers

PMID31844298
PMCPMC8634771
OpenAlexW2995499174

What OpenQuestion holds

Textmetadata
LicenceTDM
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 OpenQuestion graph.