Cargando…

Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau

Floccularia luteovirens, also known as “Yellow mushroom”, is an edible ectomycorrhizal fungus widely distributed in the Qinghai-Tibet Plateau alpine meadow. So far, little genomic information is known about F. luteovirens, which is not conductive to the protection and utilization of it. In this manu...

Descripción completa

Detalles Bibliográficos
Autores principales: Gan, Xiaolong, Cao, Dong, Zhang, Zhenyu, Cheng, Shu, Wei, Le, Li, Shiming, Liu, Baolong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Genetics Society of America 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7144084/
https://www.ncbi.nlm.nih.gov/pubmed/32098800
http://dx.doi.org/10.1534/g3.120.401037
_version_ 1783519765669609472
author Gan, Xiaolong
Cao, Dong
Zhang, Zhenyu
Cheng, Shu
Wei, Le
Li, Shiming
Liu, Baolong
author_facet Gan, Xiaolong
Cao, Dong
Zhang, Zhenyu
Cheng, Shu
Wei, Le
Li, Shiming
Liu, Baolong
author_sort Gan, Xiaolong
collection PubMed
description Floccularia luteovirens, also known as “Yellow mushroom”, is an edible ectomycorrhizal fungus widely distributed in the Qinghai-Tibet Plateau alpine meadow. So far, little genomic information is known about F. luteovirens, which is not conductive to the protection and utilization of it. In this manuscript, we present a first draft genome assembly and annotation of F. luteovirens. The fruiting body of F. luteovirens was sequenced with PacBio Sequel and Illumina Hiseq 2500 system. The assembled genome size was 28.8 Mb, and comprising 183 contigs with a N50 contig size of 571 kb. A total of 8,333 protein-coding genes were predicted and 7,999 genes were further assigned to different public protein databases. Besides, 400 CAZymes were identified in F. luteovirens. Phylogenetic analysis suggested that F. luteovirens should belong to the Agaricaceae family. Time tree result showed that the speciation of F. luteovirens happened approximately 170 Million years ago. Furthermore, 357 species-specific gene families were annotated against KEGG and GO database. This genome assembly and annotation should be an essential genomic foundation for understanding the phylogenetic, metabolic and symbiotic traits of F. luteovirens.
format Online
Article
Text
id pubmed-7144084
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Genetics Society of America
record_format MEDLINE/PubMed
spelling pubmed-71440842020-04-14 Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau Gan, Xiaolong Cao, Dong Zhang, Zhenyu Cheng, Shu Wei, Le Li, Shiming Liu, Baolong G3 (Bethesda) Genome Report Floccularia luteovirens, also known as “Yellow mushroom”, is an edible ectomycorrhizal fungus widely distributed in the Qinghai-Tibet Plateau alpine meadow. So far, little genomic information is known about F. luteovirens, which is not conductive to the protection and utilization of it. In this manuscript, we present a first draft genome assembly and annotation of F. luteovirens. The fruiting body of F. luteovirens was sequenced with PacBio Sequel and Illumina Hiseq 2500 system. The assembled genome size was 28.8 Mb, and comprising 183 contigs with a N50 contig size of 571 kb. A total of 8,333 protein-coding genes were predicted and 7,999 genes were further assigned to different public protein databases. Besides, 400 CAZymes were identified in F. luteovirens. Phylogenetic analysis suggested that F. luteovirens should belong to the Agaricaceae family. Time tree result showed that the speciation of F. luteovirens happened approximately 170 Million years ago. Furthermore, 357 species-specific gene families were annotated against KEGG and GO database. This genome assembly and annotation should be an essential genomic foundation for understanding the phylogenetic, metabolic and symbiotic traits of F. luteovirens. Genetics Society of America 2020-02-25 /pmc/articles/PMC7144084/ /pubmed/32098800 http://dx.doi.org/10.1534/g3.120.401037 Text en Copyright © 2020 Gan et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Genome Report
Gan, Xiaolong
Cao, Dong
Zhang, Zhenyu
Cheng, Shu
Wei, Le
Li, Shiming
Liu, Baolong
Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau
title Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau
title_full Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau
title_fullStr Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau
title_full_unstemmed Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau
title_short Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau
title_sort draft genome assembly of floccularia luteovirens, an edible and symbiotic mushroom on qinghai-tibet plateau
topic Genome Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7144084/
https://www.ncbi.nlm.nih.gov/pubmed/32098800
http://dx.doi.org/10.1534/g3.120.401037
work_keys_str_mv AT ganxiaolong draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau
AT caodong draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau
AT zhangzhenyu draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau
AT chengshu draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau
AT weile draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau
AT lishiming draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau
AT liubaolong draftgenomeassemblyoffloccularialuteovirensanedibleandsymbioticmushroomonqinghaitibetplateau