Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation
Marine fungi remain poorly covered in global genome sequencing campaigns; the 1000 fungal genomes (1KFG) project attempts to shed light on the diversity, ecology and potential industrial use of overlooked and poorly resolved fungal taxa. This study characterizes the genomes of three marine fungi: Em...
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Online Access: | https://hdl.handle.net/10037/22685 https://doi.org/10.1186/s43008-021-00072-0 |
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ftunivtroemsoe:oai:munin.uit.no:10037/22685 2023-05-15T14:27:52+02:00 Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation Hagestad, Ole Christian Hou, Lingwei Andersen, Jeanette Hammer Hansen, Espen Altermark, Bjørn Li, Chun Kuhnert, Eric Cox, Russell J. Crous, Pedro W. Spatafora, Joseph W. Lail, Kathleen Amirebrahimi, Mojgan Lipzen, Anna Pangilinan, Jasmyn Andreopoulos, William Hayes, Richard H. Ng, Vivian Grigoriev, Igor V. Jackson, Stephen A. Sutton, Thomas D. S. Dobson, Alan D. W. Rämä, Teppo 2021-08-09 https://hdl.handle.net/10037/22685 https://doi.org/10.1186/s43008-021-00072-0 eng eng BMC IMA Fungus UiT Norges arktiske universitet: Centre for New Antibacterial Strategies (CANS) Norges forskningsråd: 269425 info:eu-repo/grantAgreement/RCN/BIOTEK2021/269425/Norway/DL: Digital discovery of antimicrobial molecules from marine Arctic resources with reduced risk of triggering resistance// Hagestad, Hou, Andersen, Hansen, Altermark, Li, Kuhnert, Cox, Crous, Spatafora, Lail, Amirebrahimi, Lipzen, Pangilinan, Andreopoulos, Hayes, Ng, Grigoriev, Jackson, Sutton, Dobson, Rämä. Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation. IMA Fungus. 2021;12 FRIDAID 1927487 doi:10.1186/s43008-021-00072-0 2210-6340 2210-6359 https://hdl.handle.net/10037/22685 openAccess Copyright 2021 The Author(s) VDP::Mathematics and natural science: 400 VDP::Matematikk og Naturvitenskap: 400 Journal article Tidsskriftartikkel Peer reviewed publishedVersion 2021 ftunivtroemsoe https://doi.org/10.1186/s43008-021-00072-0 2021-10-06T22:54:18Z Marine fungi remain poorly covered in global genome sequencing campaigns; the 1000 fungal genomes (1KFG) project attempts to shed light on the diversity, ecology and potential industrial use of overlooked and poorly resolved fungal taxa. This study characterizes the genomes of three marine fungi: Emericellopsis sp. TS7, wood-associated Amylocarpus encephaloides and algae-associated Calycina marina . These species were genome sequenced to study their genomic features, biosynthetic potential and phylogenetic placement using multilocus data. Amylocarpus encephaloides and C. marina were placed in the Helotiaceae and Pezizellaceae (Helotiales) , respectively, based on a 15-gene phylogenetic analysis. These two genomes had fewer biosynthetic gene clusters (BGCs) and carbohydrate active enzymes (CAZymes) than Emericellopsis sp. TS7 isolate. Emericellopsis sp. TS7 ( Hypocreales, Ascomycota ) was isolated from the sponge Stelletta normani . A six-gene phylogenetic analysis placed the isolate in the marine Emericellopsis clade and morphological examination confirmed that the isolate represents a new species, which is described here as E. atlantica . Analysis of its CAZyme repertoire and a culturing experiment on three marine and one terrestrial substrates indicated that E. atlantica is a psychrotrophic generalist fungus that is able to degrade several types of marine biomass. FungiSMASH analysis revealed the presence of 35 BGCs including, eight non-ribosomal peptide synthases (NRPSs), six NRPS-like, six polyketide synthases, nine terpenes and six hybrid, mixed or other clusters. Of these BGCs, only five were homologous with characterized BGCs. The presence of unknown BGCs sets and large CAZyme repertoire set stage for further investigations of E. atlantica . The Pezizellaceae genome and the genome of the monotypic Amylocarpus genus represent the first published genomes of filamentous fungi that are restricted in their occurrence to the marine habitat and form thus a valuable resource for the community that can be used in studying ecological adaptions of fungi using comparative genomics. Article in Journal/Newspaper Arctic University of Tromsø: Munin Open Research Archive IMA Fungus 12 1 |
institution |
Open Polar |
collection |
University of Tromsø: Munin Open Research Archive |
op_collection_id |
ftunivtroemsoe |
language |
English |
topic |
VDP::Mathematics and natural science: 400 VDP::Matematikk og Naturvitenskap: 400 |
spellingShingle |
VDP::Mathematics and natural science: 400 VDP::Matematikk og Naturvitenskap: 400 Hagestad, Ole Christian Hou, Lingwei Andersen, Jeanette Hammer Hansen, Espen Altermark, Bjørn Li, Chun Kuhnert, Eric Cox, Russell J. Crous, Pedro W. Spatafora, Joseph W. Lail, Kathleen Amirebrahimi, Mojgan Lipzen, Anna Pangilinan, Jasmyn Andreopoulos, William Hayes, Richard H. Ng, Vivian Grigoriev, Igor V. Jackson, Stephen A. Sutton, Thomas D. S. Dobson, Alan D. W. Rämä, Teppo Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
topic_facet |
VDP::Mathematics and natural science: 400 VDP::Matematikk og Naturvitenskap: 400 |
description |
Marine fungi remain poorly covered in global genome sequencing campaigns; the 1000 fungal genomes (1KFG) project attempts to shed light on the diversity, ecology and potential industrial use of overlooked and poorly resolved fungal taxa. This study characterizes the genomes of three marine fungi: Emericellopsis sp. TS7, wood-associated Amylocarpus encephaloides and algae-associated Calycina marina . These species were genome sequenced to study their genomic features, biosynthetic potential and phylogenetic placement using multilocus data. Amylocarpus encephaloides and C. marina were placed in the Helotiaceae and Pezizellaceae (Helotiales) , respectively, based on a 15-gene phylogenetic analysis. These two genomes had fewer biosynthetic gene clusters (BGCs) and carbohydrate active enzymes (CAZymes) than Emericellopsis sp. TS7 isolate. Emericellopsis sp. TS7 ( Hypocreales, Ascomycota ) was isolated from the sponge Stelletta normani . A six-gene phylogenetic analysis placed the isolate in the marine Emericellopsis clade and morphological examination confirmed that the isolate represents a new species, which is described here as E. atlantica . Analysis of its CAZyme repertoire and a culturing experiment on three marine and one terrestrial substrates indicated that E. atlantica is a psychrotrophic generalist fungus that is able to degrade several types of marine biomass. FungiSMASH analysis revealed the presence of 35 BGCs including, eight non-ribosomal peptide synthases (NRPSs), six NRPS-like, six polyketide synthases, nine terpenes and six hybrid, mixed or other clusters. Of these BGCs, only five were homologous with characterized BGCs. The presence of unknown BGCs sets and large CAZyme repertoire set stage for further investigations of E. atlantica . The Pezizellaceae genome and the genome of the monotypic Amylocarpus genus represent the first published genomes of filamentous fungi that are restricted in their occurrence to the marine habitat and form thus a valuable resource for the community that can be used in studying ecological adaptions of fungi using comparative genomics. |
format |
Article in Journal/Newspaper |
author |
Hagestad, Ole Christian Hou, Lingwei Andersen, Jeanette Hammer Hansen, Espen Altermark, Bjørn Li, Chun Kuhnert, Eric Cox, Russell J. Crous, Pedro W. Spatafora, Joseph W. Lail, Kathleen Amirebrahimi, Mojgan Lipzen, Anna Pangilinan, Jasmyn Andreopoulos, William Hayes, Richard H. Ng, Vivian Grigoriev, Igor V. Jackson, Stephen A. Sutton, Thomas D. S. Dobson, Alan D. W. Rämä, Teppo |
author_facet |
Hagestad, Ole Christian Hou, Lingwei Andersen, Jeanette Hammer Hansen, Espen Altermark, Bjørn Li, Chun Kuhnert, Eric Cox, Russell J. Crous, Pedro W. Spatafora, Joseph W. Lail, Kathleen Amirebrahimi, Mojgan Lipzen, Anna Pangilinan, Jasmyn Andreopoulos, William Hayes, Richard H. Ng, Vivian Grigoriev, Igor V. Jackson, Stephen A. Sutton, Thomas D. S. Dobson, Alan D. W. Rämä, Teppo |
author_sort |
Hagestad, Ole Christian |
title |
Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
title_short |
Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
title_full |
Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
title_fullStr |
Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
title_full_unstemmed |
Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
title_sort |
genomic characterization of three marine fungi, including emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation |
publisher |
BMC |
publishDate |
2021 |
url |
https://hdl.handle.net/10037/22685 https://doi.org/10.1186/s43008-021-00072-0 |
genre |
Arctic |
genre_facet |
Arctic |
op_relation |
IMA Fungus UiT Norges arktiske universitet: Centre for New Antibacterial Strategies (CANS) Norges forskningsråd: 269425 info:eu-repo/grantAgreement/RCN/BIOTEK2021/269425/Norway/DL: Digital discovery of antimicrobial molecules from marine Arctic resources with reduced risk of triggering resistance// Hagestad, Hou, Andersen, Hansen, Altermark, Li, Kuhnert, Cox, Crous, Spatafora, Lail, Amirebrahimi, Lipzen, Pangilinan, Andreopoulos, Hayes, Ng, Grigoriev, Jackson, Sutton, Dobson, Rämä. Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation. IMA Fungus. 2021;12 FRIDAID 1927487 doi:10.1186/s43008-021-00072-0 2210-6340 2210-6359 https://hdl.handle.net/10037/22685 |
op_rights |
openAccess Copyright 2021 The Author(s) |
op_doi |
https://doi.org/10.1186/s43008-021-00072-0 |
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IMA Fungus |
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12 |
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