MycorrhizaeV1, Main, Exploration, bibRecord, 001500

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome.

Identifieur interne : 001500 ( Main/Exploration ); précédent : 001499; suivant : 001501

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome.

Auteurs : C Alisha Quandt [États-Unis] ; Annegret Kohler [France] ; Cedar N. Hesse [États-Unis] ; Thomas J. Sharpton [États-Unis] ; Francis Martin [France] ; Joseph W. Spatafora [États-Unis]

Source :

Environmental microbiology [ 1462-2920 ] ; 2015.

RBID : pubmed:25753751

Descripteurs français

English descriptors

KwdEn :
- Base Sequence (MeSH), Bradyrhizobiaceae (classification), Bradyrhizobiaceae (genetics), DNA Transposable Elements (genetics), DNA, Fungal (genetics), Eurotiales (classification), Eurotiales (genetics), Fruiting Bodies, Fungal (genetics), Genome, Fungal (genetics), Metagenome (MeSH), Metagenomics (MeSH), Microbiota (genetics), Mycorrhizae (genetics), Phylogeny (MeSH), Sequence Analysis, DNA (MeSH), Talaromyces (genetics).
MESH :
- chemical , genetics : DNA Transposable Elements, DNA, Fungal.
- classification : Bradyrhizobiaceae, Eurotiales.
- genetics : Bradyrhizobiaceae, Eurotiales, Fruiting Bodies, Fungal, Genome, Fungal, Microbiota, Mycorrhizae, Talaromyces.
- Base Sequence, Metagenome, Metagenomics, Phylogeny, Sequence Analysis, DNA.

Abstract

Many obligate symbiotic fungi are difficult to maintain in culture, and there is a growing need for alternative approaches to obtaining tissue and subsequent genomic assemblies from such species. In this study, the genome of Elaphomyces granulatus was sequenced from sporocarp tissue. The genome assembly remains on many contigs, but gene space is estimated to be mostly complete. Phylogenetic analyses revealed that the Elaphomyces lineage is most closely related to Talaromyces and Trichocomaceae s.s. The genome of E. granulatus is reduced in carbohydrate-active enzymes, despite a large expansion in genome size, both of which are consistent with what is seen in Tuber melanosporum, the other sequenced ectomycorrhizal ascomycete. A large number of transposable elements are predicted in the E. granulatus genome, especially Gypsy-like long terminal repeats, and there has also been an expansion in helicases. The metagenome is a complex community dominated by bacteria in Bradyrhizobiaceae, and there is evidence to suggest that the community may be reduced in functional capacity as estimated by KEGG pathways. Through the sequencing of sporocarp tissue, this study has provided insights into Elaphomyces phylogenetics, genomics, metagenomics and the evolution of the ectomycorrhizal association.

DOI: 10.1111/1462-2920.12840
PubMed: 25753751

Affiliations:

Links toward previous steps (curation, corpus...)

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Le document en format XML

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<term>Bradyrhizobiaceae (classification)</term>
<term>Bradyrhizobiaceae (genetics)</term>
<term>DNA Transposable Elements (genetics)</term>
<term>DNA, Fungal (genetics)</term>
<term>Eurotiales (classification)</term>
<term>Eurotiales (genetics)</term>
<term>Fruiting Bodies, Fungal (genetics)</term>
<term>Genome, Fungal (genetics)</term>
<term>Metagenome (MeSH)</term>
<term>Metagenomics (MeSH)</term>
<term>Microbiota (genetics)</term>
<term>Mycorrhizae (genetics)</term>
<term>Phylogeny (MeSH)</term>
<term>Sequence Analysis, DNA (MeSH)</term>
<term>Talaromyces (genetics)</term>
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<term>Analyse de séquence d'ADN (MeSH)</term>
<term>Bradyrhizobiaceae (classification)</term>
<term>Bradyrhizobiaceae (génétique)</term>
<term>Corps fructifères de champignon (génétique)</term>
<term>Eurotiales (classification)</term>
<term>Eurotiales (génétique)</term>
<term>Génome fongique (génétique)</term>
<term>Microbiote (génétique)</term>
<term>Mycorhizes (génétique)</term>
<term>Métagénome (MeSH)</term>
<term>Métagénomique (MeSH)</term>
<term>Phylogenèse (MeSH)</term>
<term>Séquence nucléotidique (MeSH)</term>
<term>Talaromyces (génétique)</term>
<term>Éléments transposables d'ADN (génétique)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA Transposable Elements</term>
<term>DNA, Fungal</term>
</keywords>
<keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Bradyrhizobiaceae</term>
<term>Eurotiales</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Bradyrhizobiaceae</term>
<term>Eurotiales</term>
<term>Fruiting Bodies, Fungal</term>
<term>Genome, Fungal</term>
<term>Microbiota</term>
<term>Mycorrhizae</term>
<term>Talaromyces</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ADN fongique</term>
<term>Bradyrhizobiaceae</term>
<term>Corps fructifères de champignon</term>
<term>Eurotiales</term>
<term>Génome fongique</term>
<term>Microbiote</term>
<term>Mycorhizes</term>
<term>Talaromyces</term>
<term>Éléments transposables d'ADN</term>
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<term>Phylogeny</term>
<term>Sequence Analysis, DNA</term>
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<front><div type="abstract" xml:lang="en">Many obligate symbiotic fungi are difficult to maintain in culture, and there is a growing need for alternative approaches to obtaining tissue and subsequent genomic assemblies from such species. In this study, the genome of Elaphomyces granulatus was sequenced from sporocarp tissue. The genome assembly remains on many contigs, but gene space is estimated to be mostly complete. Phylogenetic analyses revealed that the Elaphomyces lineage is most closely related to Talaromyces and Trichocomaceae s.s. The genome of E. granulatus is reduced in carbohydrate-active enzymes, despite a large expansion in genome size, both of which are consistent with what is seen in Tuber melanosporum, the other sequenced ectomycorrhizal ascomycete. A large number of transposable elements are predicted in the E. granulatus genome, especially Gypsy-like long terminal repeats, and there has also been an expansion in helicases. The metagenome is a complex community dominated by bacteria in Bradyrhizobiaceae, and there is evidence to suggest that the community may be reduced in functional capacity as estimated by KEGG pathways. Through the sequencing of sporocarp tissue, this study has provided insights into Elaphomyces phylogenetics, genomics, metagenomics and the evolution of the ectomycorrhizal association. </div>
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<Abstract><AbstractText>Many obligate symbiotic fungi are difficult to maintain in culture, and there is a growing need for alternative approaches to obtaining tissue and subsequent genomic assemblies from such species. In this study, the genome of Elaphomyces granulatus was sequenced from sporocarp tissue. The genome assembly remains on many contigs, but gene space is estimated to be mostly complete. Phylogenetic analyses revealed that the Elaphomyces lineage is most closely related to Talaromyces and Trichocomaceae s.s. The genome of E. granulatus is reduced in carbohydrate-active enzymes, despite a large expansion in genome size, both of which are consistent with what is seen in Tuber melanosporum, the other sequenced ectomycorrhizal ascomycete. A large number of transposable elements are predicted in the E. granulatus genome, especially Gypsy-like long terminal repeats, and there has also been an expansion in helicases. The metagenome is a complex community dominated by bacteria in Bradyrhizobiaceae, and there is evidence to suggest that the community may be reduced in functional capacity as estimated by KEGG pathways. Through the sequencing of sporocarp tissue, this study has provided insights into Elaphomyces phylogenetics, genomics, metagenomics and the evolution of the ectomycorrhizal association. </AbstractText>
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<li>États-Unis</li>
</country>
<region><li>Grand Est</li>
<li>Lorraine (région)</li>
<li>Nouveau-Mexique</li>
</region>
<settlement><li>Champenoux</li>
</settlement>
</list>
<tree><country name="États-Unis"><noRegion><name sortKey="Quandt, C Alisha" sort="Quandt, C Alisha" uniqKey="Quandt C" first="C Alisha" last="Quandt">C Alisha Quandt</name>
</noRegion>
<name sortKey="Hesse, Cedar N" sort="Hesse, Cedar N" uniqKey="Hesse C" first="Cedar N" last="Hesse">Cedar N. Hesse</name>
<name sortKey="Sharpton, Thomas J" sort="Sharpton, Thomas J" uniqKey="Sharpton T" first="Thomas J" last="Sharpton">Thomas J. Sharpton</name>
<name sortKey="Sharpton, Thomas J" sort="Sharpton, Thomas J" uniqKey="Sharpton T" first="Thomas J" last="Sharpton">Thomas J. Sharpton</name>
<name sortKey="Spatafora, Joseph W" sort="Spatafora, Joseph W" uniqKey="Spatafora J" first="Joseph W" last="Spatafora">Joseph W. Spatafora</name>
</country>
<country name="France"><region name="Grand Est"><name sortKey="Kohler, Annegret" sort="Kohler, Annegret" uniqKey="Kohler A" first="Annegret" last="Kohler">Annegret Kohler</name>
</region>
<name sortKey="Martin, Francis" sort="Martin, Francis" uniqKey="Martin F" first="Francis" last="Martin">Francis Martin</name>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Bois/explor/MycorrhizaeV1/Data/Main/Exploration

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001500 | SxmlIndent | more

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Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Bois
   |area=    MycorrhizaeV1
   |flux=    Main
   |étape=   Exploration
   |type=    RBID
   |clé=     pubmed:25753751
   |texte=   Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome.
}}

Pour générer des pages wiki

HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i   -Sk "pubmed:25753751" \
       | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd   \
       | NlmPubMed2Wicri -a MycorrhizaeV1

This area was generated with Dilib version V0.6.37.
Data generation: Wed Nov 18 15:34:48 2020. Site generation: Wed Nov 18 15:41:10 2020

	Serveur d'exploration sur la mycorhize
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration sur la mycorhize

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome.

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome.

Source :

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