Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria‐rich microbiome. (22nd April 2015)

• Record Type: Journal Article
• Authors: Quandt, C. Alisha; Kohler, Annegret; Hesse, Cedar N.; Sharpton, Thomas J.; Martin, Francis; Spatafora, Joseph W.
• Is Part Of: Environmental microbiology. Volume 17:Number 8(2015:Aug.)
• Page Start: 2952
• Page End: 2968
• Publication Date: 2015-04-22
• Subjects: Microbial ecology -- Periodicals; Environmental Microbiology -- Periodicals; 579.17
• DOI: 10.1111/1462-2920.12840
• Languages: English
• ISSNs: 1462-2912

Abstract

Summary: 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 E laphomyces 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 E laphomyces lineage is most closely related to T alaromyces and Trichocomaceae s.s. The genome of E . granulatu s is reduced in carbohydrate‐active enzymes, despite a large expansion in genome size, both of which are consistent with what is seen in T uber 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 E laphomyces phylogenetics, genomics, metagenomics and the evolution of the ectomycorrhizal association.