Evidence map›Paper›PMID 30518342›Full record

ArticleBMC plant biology2018

A phylogenetic framework of the legume genus Aeschynomene for comparative genetic analysis of the Nod-dependent and Nod-independent symbioses.

Laurent Brottier, Clémence Chaintreuil, Paul Simion, Céline Scornavacca, Ronan Rivallan, Pierre Mournet, Lionel Moulin, Gwilym P Lewis, Joël Fardoux, Spencer C Brown and 13 more

Open access · goldAbstract read
In one paragraph

Article in BMC plant biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
2.4field-weighted citation impact, top 10% 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

12 citing papers in PubMed, 26 citations in OpenAlex.

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  12. Frontiers in plant science · 2019
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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

23 authors at 11 institutions in 7 countries.

Laurent BrottierIRD, Laboratoire des Symbioses Tropicales et Méditerranéennes, UMR LSTM, Campus International de Baillarguet, 34398, Montpellier, France.
Clémence ChaintreuilIRD, Laboratoire des Symbioses Tropicales et Méditerranéennes, UMR LSTM, Campus International de Baillarguet, 34398, Montpellier, France.
Paul SimionInstitut des Sciences de l'Evolution (ISE-M), Université de Montpellier, CNRS, IRD, EPHE, 34095 Cedex 5, Montpellier, France.
Céline ScornavaccaInstitut des Sciences de l'Evolution (ISE-M), Université de Montpellier, CNRS, IRD, EPHE, 34095 Cedex 5, Montpellier, France.
Ronan RivallanCIRAD (Centre de Coopération Internationale en Recherche Agronomique pour le Développement), UMR AGAP, F-34398, Montpellier, France.
Pierre MournetCIRAD (Centre de Coopération Internationale en Recherche Agronomique pour le Développement), UMR AGAP, F-34398, Montpellier, France.
Lionel MoulinIRD, Interactions Plantes Microorganismes Environnement, UMR IPME, 34394, Montpellier, France.
Gwilym P LewisComparative Plant and Fungal Biology Department, Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3AB, UK.
Joël FardouxIRD, Laboratoire des Symbioses Tropicales et Méditerranéennes, UMR LSTM, Campus International de Baillarguet, 34398, Montpellier, France.
Spencer C BrownInstitute of Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette, France.
Mario Gomez-PachecoInstitute of Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette, France.
Mickaël BourgesInstitute of Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette, France.
Catherine HervouetCIRAD (Centre de Coopération Internationale en Recherche Agronomique pour le Développement), UMR AGAP, F-34398, Montpellier, France.
Mathieu GueyeLaboratoire de Botanique, Institut Fondamental d'Afrique Noire, Ch. A. Diop, BP, 206, Dakar, Sénégal.
Robin DuponnoisIRD, Laboratoire des Symbioses Tropicales et Méditerranéennes, UMR LSTM, Campus International de Baillarguet, 34398, Montpellier, France.
Heriniaina RamanankieranaLaboratoire de Microbiologie de l'Environnement/Centre National de Recherche sur l'Environnement, 101, Antananarivo, Madagascar.
Herizo RandriambanonaLaboratoire de Microbiologie de l'Environnement/Centre National de Recherche sur l'Environnement, 101, Antananarivo, Madagascar.
Hervé VandrotIAC, Laboratoire de Botanique et d'Ecologie Végétale Appliquée, UMR AMAP, 98825, Pouembout, Nouvelle-Calédonie, France.
Maria ZabaletaDepartment of Biochemistry and Microbial Genomics, IIBCE, 11600, Montevideo, Uruguay.
Maitrayee DasGuptaDepartment of Biochemistry, University of Calcutta, Kolkata, 700019, India.
Angélique D'HontCIRAD (Centre de Coopération Internationale en Recherche Agronomique pour le Développement), UMR AGAP, F-34398, Montpellier, France.
Eric GiraudIRD, Laboratoire des Symbioses Tropicales et Méditerranéennes, UMR LSTM, Campus International de Baillarguet, 34398, Montpellier, France.
Jean-François ArrighiIRD, Laboratoire des Symbioses Tropicales et Méditerranéennes, UMR LSTM, Campus International de Baillarguet, 34398, Montpellier, France. jean-francois.arrighi@ird.fr.ORCID http://orcid.org/0000-0001-6184-2066
Laboratoire des Symbioses Tropicales et Méditerranéennes · FRCentre de Coopération Internationale en Recherche Agronomique pour le Développement · FRUniversité Paris-Sud · FRCentre National de la Recherche Scientifique · FRCentre National de Recherches sur l'Environnement · MGCheikh Anta Diop University · SNInstituto de Investigaciones Biológicas Clemente Estable · UYLaboratoire des Interactions Plantes Micro-Organismes · FRRoyal Botanic Gardens, Kew · GBUMR Botanique et Modélisation de l’Architecture des Plantes et des végétations · FRUniversity of Calcutta · IN

Funding

ANR ANR-AeschyNod-14-CE19-0005-01
6 · The paper itself

Abstract

backgroundAmong semi-aquatic species of the legume genus Aeschynomene, some have the property of being nodulated by photosynthetic Bradyrhizobium lacking the nodABC genes necessary for the synthesis of Nod factors. Knowledge of the specificities underlying this Nod-independent symbiosis has been gained from the model legume Aeschynomene evenia but our understanding remains limited due to the lack of comparative genetics with related taxa using a Nod factor-dependent process. To fill this gap, we combined different approaches to perform a thorough comparative analysis in the genus Aeschynomene.

resultsThis study significantly broadened previous taxon sampling, including in allied genera, in order to construct a comprehensive phylogeny. In the phylogenetic tree, five main lineages were delineated, including a novel lineage, the Nod-independent clade and another one containing a polytomy that comprised several Aeschynomene groups and all the allied genera. This phylogeny was matched with data on chromosome number, genome size and low-copy nuclear gene sequences to reveal the diploid species and a polytomy containing mostly polyploid taxa. For these taxa, a single allopolyploid origin was inferred and the putative parental lineages were identified. Finally, nodulation tests with different Bradyrhizobium strains revealed new nodulation behaviours and the diploid species outside of the Nod-independent clade were compared for their experimental tractability and genetic diversity.

conclusionsThe extended knowledge of the genetics and biology of the different lineages sheds new light of the evolutionary history of the genus Aeschynomene and they provide a solid framework to exploit efficiently the diversity encountered in Aeschynomene legumes. Notably, our backbone tree contains all the species that are diploid and it clarifies the genetic relationships between the Nod-independent clade and the Nod-dependent lineages. This study enabled the identification of A. americana and A. patula as the most suitable species to undertake a comparative genetic study of the Nod-independent and Nod-dependent symbioses.

Indexed as

Biological EvolutionBradyrhizobiumFabaceaeGenomicsNitrogen FixationPhylogenyPlant Root NodulationPloidiesSymbiosisAeschynomeneGeneticsLegumesNodulationPhylogeneticsPolyploidySymbiosis

Identifiers

PMID30518342
PMCPMC6282307
OpenAlexW2890790257

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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.