Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus Somion occarium.

IF 3.2 2区生物学 Q2 EVOLUTIONARY BIOLOGY Genome Biology and Evolution Pub Date : 2025-01-06 DOI:10.1093/gbe/evaf003

Rowena Hill, Jamie McGowan, Vendula Brabcová, Seanna McTaggart, Naomi Irish, Tom Barker, Vanda Knitlhoffer, Sacha Lucchini, Kendall Baker, Leah Catchpole, Chris Watkins, Karim Gharbi, Gemy Kaithakottil, Alan Tracey, Jonathan M D Wood, Michal Tomšovský, Petr Baldrian, David Swarbreck, Neil Hall

{"title":"Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus Somion occarium.","authors":"Rowena Hill, Jamie McGowan, Vendula Brabcová, Seanna McTaggart, Naomi Irish, Tom Barker, Vanda Knitlhoffer, Sacha Lucchini, Kendall Baker, Leah Catchpole, Chris Watkins, Karim Gharbi, Gemy Kaithakottil, Alan Tracey, Jonathan M D Wood, Michal Tomšovský, Petr Baldrian, David Swarbreck, Neil Hall","doi":"10.1093/gbe/evaf003","DOIUrl":null,"url":null,"abstract":"<p><p>Somion occarium is a wood-decaying bracket fungus belonging to an order known to be rich in useful chemical compounds. Despite its widespread distribution, S. occarium has been assessed as endangered on at least 1 national Red List, presumably due to loss of old-growth forest habitat. Here, we present a near-complete, annotated nuclear genome assembly for S. occarium consisting of 31 Mbp arranged in 11 pseudochromosomes-9 of which are telomere-to-telomere-as well as a complete mitochondrial genome assembly of 112.9 Kbp. We additionally performed phylogenomic analysis and annotated carbohydrate-active enzymes (CAZymes) to compare gene and CAZyme content across closely related species. This genome was sequenced as the representative for Kingdom Fungi in the European Reference Genome Atlas Pilot Project.</p>","PeriodicalId":12779,"journal":{"name":"Genome Biology and Evolution","volume":" ","pages":""},"PeriodicalIF":3.2000,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11783313/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Genome Biology and Evolution","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1093/gbe/evaf003","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"EVOLUTIONARY BIOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

Somion occarium is a wood-decaying bracket fungus belonging to an order known to be rich in useful chemical compounds. Despite its widespread distribution, S. occarium has been assessed as endangered on at least 1 national Red List, presumably due to loss of old-growth forest habitat. Here, we present a near-complete, annotated nuclear genome assembly for S. occarium consisting of 31 Mbp arranged in 11 pseudochromosomes-9 of which are telomere-to-telomere-as well as a complete mitochondrial genome assembly of 112.9 Kbp. We additionally performed phylogenomic analysis and annotated carbohydrate-active enzymes (CAZymes) to compare gene and CAZyme content across closely related species. This genome was sequenced as the representative for Kingdom Fungi in the European Reference Genome Atlas Pilot Project.

查看原文

微信好友朋友圈 QQ好友复制链接

本刊更多论文

濒危木材腐烂真菌索米翁的核和线粒体基因组组装。

Somion occarium是一种木材腐烂的支架真菌，属于富含有用化合物的一目。尽管分布广泛，但至少在一个国家红色名录上被评估为濒危物种，可能是由于原始森林栖息地的丧失。在这里，我们提出了一个近乎完整的、带注释的棘球蚴核基因组组装，包括31 Mbp，排列在11条假染色体上，其中9条是端粒到端粒，以及一个完整的线粒体基因组组装，长度为112.9 Kbp。我们还进行了系统基因组分析和碳水化合物活性酶（CAZymes）注释，以比较近缘物种的基因和CAZyme含量。该基因组在欧洲参考基因组图谱（ERGA）试点项目中作为真菌王国的代表进行了测序。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文去求助

来源期刊

Genome Biology and Evolution EVOLUTIONARY BIOLOGY-GENETICS & HEREDITY

CiteScore

5.80

自引率

6.10%

发文量

169

审稿时长

1 months

期刊介绍： About the journal Genome Biology and Evolution (GBE) publishes leading original research at the interface between evolutionary biology and genomics. Papers considered for publication report novel evolutionary findings that concern natural genome diversity, population genomics, the structure, function, organisation and expression of genomes, comparative genomics, proteomics, and environmental genomic interactions. Major evolutionary insights from the fields of computational biology, structural biology, developmental biology, and cell biology are also considered, as are theoretical advances in the field of genome evolution. GBE’s scope embraces genome-wide evolutionary investigations at all taxonomic levels and for all forms of life — within populations or across domains. Its aims are to further the understanding of genomes in their evolutionary context and further the understanding of evolution from a genome-wide perspective.