First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale

Abstract Pink snow mold, caused by a phytopathogenic and psychrotolerant fungus, Microdochium nivale, is a severe disease of winter cereals and grasses that predominantly occurs under snow cover or shortly after its melt. Snow mold has significantly progressed during the past decade, often reaching...

Full description

Saved in:
Bibliographic Details
Main Authors: Ivan Tsers, Ekaterina Marenina, Azat Meshcherov, Olga Petrova, Olga Gogoleva, Alexander Tkachenko, Natalia Gogoleva, Yuri Gogolev, Evgenii Potapenko, Olga Muraeva, Mira Ponomareva, Viktor Korzun, Vladimir Gorshkov
Format: Article
Language:English
Published: BMC 2023-01-01
Series:IMA Fungus
Subjects:
Online Access:https://doi.org/10.1186/s43008-022-00107-0
Tags: Add Tag
No Tags, Be the first to tag this record!
_version_ 1832557730762588160
author Ivan Tsers
Ekaterina Marenina
Azat Meshcherov
Olga Petrova
Olga Gogoleva
Alexander Tkachenko
Natalia Gogoleva
Yuri Gogolev
Evgenii Potapenko
Olga Muraeva
Mira Ponomareva
Viktor Korzun
Vladimir Gorshkov
author_facet Ivan Tsers
Ekaterina Marenina
Azat Meshcherov
Olga Petrova
Olga Gogoleva
Alexander Tkachenko
Natalia Gogoleva
Yuri Gogolev
Evgenii Potapenko
Olga Muraeva
Mira Ponomareva
Viktor Korzun
Vladimir Gorshkov
author_sort Ivan Tsers
collection DOAJ
description Abstract Pink snow mold, caused by a phytopathogenic and psychrotolerant fungus, Microdochium nivale, is a severe disease of winter cereals and grasses that predominantly occurs under snow cover or shortly after its melt. Snow mold has significantly progressed during the past decade, often reaching epiphytotic levels in northern countries and resulting in dramatic yield losses. In addition, M. nivale gradually adapts to a warmer climate, spreading to less snowy territories and causing different types of plant diseases throughout the growing period. Despite its great economic importance, M. nivale is poorly investigated; its genome has not been sequenced and its crucial virulence determinants have not been identified or even predicted. In our study, we applied a hybrid assembly based on Oxford Nanopore and Illumina reads to obtain the first genome sequence of M. nivale. 11,973 genes (including 11,789 protein-encoding genes) have been revealed in the genome assembly. To better understand the genetic potential of M. nivale and to obtain a convenient reference for transcriptomic studies on this species, the identified genes were annotated and split into hierarchical three-level functional categories. A file with functionally classified M. nivale genes is presented in our study for general use. M. nivale gene products that best meet the criteria for virulence factors have been identified. The genetic potential to synthesize human-dangerous mycotoxins (fumonisin, ochratoxin B, aflatoxin, and gliotoxin) has been revealed for M. nivale. The transcriptome analysis combined with the assays for extracellular enzymatic activities (conventional virulence factors of many phytopathogens) was carried out to assess the effect of host plant (rye) metabolites on the M. nivale phenotype. In addition to disclosing plant-metabolite-upregulated M. nivale functional gene groups (including those related to host plant protein destruction and amino acid metabolism, xenobiotic detoxication (including phytoalexins benzoxazinoids), cellulose destruction (cellulose monooxygenases), iron transport, etc.), the performed analysis pointed to a crucial role of host plant lipid destruction and fungal lipid metabolism modulation in plant-M. nivale interactions.
format Article
id doaj-art-dfbf3dc44f024b6b91eb29aecc401312
institution Kabale University
issn 2210-6359
language English
publishDate 2023-01-01
publisher BMC
record_format Article
series IMA Fungus
spelling doaj-art-dfbf3dc44f024b6b91eb29aecc4013122025-02-03T02:54:36ZengBMCIMA Fungus2210-63592023-01-0114112010.1186/s43008-022-00107-0First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivaleIvan Tsers0Ekaterina Marenina1Azat Meshcherov2Olga Petrova3Olga Gogoleva4Alexander Tkachenko5Natalia Gogoleva6Yuri Gogolev7Evgenii Potapenko8Olga Muraeva9Mira Ponomareva10Viktor Korzun11Vladimir Gorshkov12Federal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesLaboratory of Computer Technologies, ITMO UniversityFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesInstitute of Evolution, University of HaifaBioinformatics InstituteFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesFederal Research Center, Kazan Scientific Center of the Russian Academy of SciencesAbstract Pink snow mold, caused by a phytopathogenic and psychrotolerant fungus, Microdochium nivale, is a severe disease of winter cereals and grasses that predominantly occurs under snow cover or shortly after its melt. Snow mold has significantly progressed during the past decade, often reaching epiphytotic levels in northern countries and resulting in dramatic yield losses. In addition, M. nivale gradually adapts to a warmer climate, spreading to less snowy territories and causing different types of plant diseases throughout the growing period. Despite its great economic importance, M. nivale is poorly investigated; its genome has not been sequenced and its crucial virulence determinants have not been identified or even predicted. In our study, we applied a hybrid assembly based on Oxford Nanopore and Illumina reads to obtain the first genome sequence of M. nivale. 11,973 genes (including 11,789 protein-encoding genes) have been revealed in the genome assembly. To better understand the genetic potential of M. nivale and to obtain a convenient reference for transcriptomic studies on this species, the identified genes were annotated and split into hierarchical three-level functional categories. A file with functionally classified M. nivale genes is presented in our study for general use. M. nivale gene products that best meet the criteria for virulence factors have been identified. The genetic potential to synthesize human-dangerous mycotoxins (fumonisin, ochratoxin B, aflatoxin, and gliotoxin) has been revealed for M. nivale. The transcriptome analysis combined with the assays for extracellular enzymatic activities (conventional virulence factors of many phytopathogens) was carried out to assess the effect of host plant (rye) metabolites on the M. nivale phenotype. In addition to disclosing plant-metabolite-upregulated M. nivale functional gene groups (including those related to host plant protein destruction and amino acid metabolism, xenobiotic detoxication (including phytoalexins benzoxazinoids), cellulose destruction (cellulose monooxygenases), iron transport, etc.), the performed analysis pointed to a crucial role of host plant lipid destruction and fungal lipid metabolism modulation in plant-M. nivale interactions.https://doi.org/10.1186/s43008-022-00107-0Phytopathogenic fungiHybrid genome assemblySnow moldMicrodochium nivaleVirulence factorsTranscriptome profiling
spellingShingle Ivan Tsers
Ekaterina Marenina
Azat Meshcherov
Olga Petrova
Olga Gogoleva
Alexander Tkachenko
Natalia Gogoleva
Yuri Gogolev
Evgenii Potapenko
Olga Muraeva
Mira Ponomareva
Viktor Korzun
Vladimir Gorshkov
First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale
IMA Fungus
Phytopathogenic fungi
Hybrid genome assembly
Snow mold
Microdochium nivale
Virulence factors
Transcriptome profiling
title First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale
title_full First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale
title_fullStr First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale
title_full_unstemmed First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale
title_short First genome-scale insights into the virulence of the snow mold causal fungus Microdochium nivale
title_sort first genome scale insights into the virulence of the snow mold causal fungus microdochium nivale
topic Phytopathogenic fungi
Hybrid genome assembly
Snow mold
Microdochium nivale
Virulence factors
Transcriptome profiling
url https://doi.org/10.1186/s43008-022-00107-0
work_keys_str_mv AT ivantsers firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT ekaterinamarenina firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT azatmeshcherov firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT olgapetrova firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT olgagogoleva firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT alexandertkachenko firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT nataliagogoleva firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT yurigogolev firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT evgeniipotapenko firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT olgamuraeva firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT miraponomareva firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT viktorkorzun firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale
AT vladimirgorshkov firstgenomescaleinsightsintothevirulenceofthesnowmoldcausalfungusmicrodochiumnivale