High quality genome sequences of thirteen Hypoxylaceae (Ascomycota) strengthen the phylogenetic family backbone and enable the discovery of new taxa

verfasst von

Daniel Wibberg, Marc Stadler, Christopher Lambert, Boyke Bunk, Cathrin Spröer, Christian Rückert, Jörn Kalinowski, Russell J. Cox, Eric Kuhnert

Abstract

The Hypoxylaceae (Xylariales, Ascomycota) is a diverse family of mainly saprotrophic fungi, which commonly occur in angiosperm-dominated forests around the world. Despite their importance in forest and plant ecology as well as a prolific source of secondary metabolites and enzymes, genome sequences of related taxa are scarce and usually derived from environmental isolates. To address this lack of knowledge thirteen taxonomically well-defined representatives of the family and one member of the closely related Xylariaceae were genome sequenced using combinations of Illumina and Oxford nanopore technologies or PacBio sequencing. The workflow leads to high quality draft genome sequences with an average N50 of 3.0 Mbp. A backbone phylogenomic tree was calculated based on the amino acid sequences of 4912 core genes reflecting the current accepted taxonomic concept of the Hypoxylaceae. A Percentage of Conserved Proteins (POCP) analysis revealed that 70% of the proteins are conserved within the family, a value with potential application for the definition of family boundaries within the order Xylariales. Also, Hypomontagnella spongiphila is proposed as a new marine derived lineage of Hypom. monticulosa based on in-depth genomic comparison and morphological differences of the cultures. The results showed that both species share 95% of their genes corresponding to more than 700 strain-specific proteins. This difference is not reflected by standard taxonomic assessments (morphology of sexual and asexual morph, chemotaxonomy, phylogeny), preventing species delimitation based on traditional concepts. Genetic changes are likely to be the result of environmental adaptations and selective pressure, the driving force of speciation. These data provide an important starting point for the establishment of a stable phylogeny of the Xylariales; they enable studies on evolution, ecological behavior and biosynthesis of natural products; and they significantly advance the taxonomy of fungi.

Organisationseinheit(en)

Institut für Organische Chemie

Externe Organisation(en)

Universität Bielefeld
Helmholtz-Zentrum für Infektionsforschung GmbH (HZI)
Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Typ

Artikel

Journal

Fungal diversity

Band

106

Seiten

7-28

Anzahl der Seiten

22

ISSN

1560-2745

Publikationsdatum

01.2021

Publikationsstatus

Veröffentlicht

Peer-reviewed

Ja

ASJC Scopus Sachgebiete

Ökologie, Evolution, Verhaltenswissenschaften und Systematik, Ökologie

Ziele für nachhaltige Entwicklung

SDG 14 – Lebensraum Wasser

Elektronische Version(en)

https://doi.org/10.1007/s13225-020-00447-5 (Zugang: Offen)