[DOI] 10.5524/100748

[Title] Genome data for the draft assembly of the aquatic moss <i>Fontinalis antipyretica</i> (Fontinalaceae, Bryophyta)

[Release Date] 2020-05-15

[Citation] Yu, J; Li, L; Wang, S; Dong, S; Chen, Z; Patel, N; Goffinet, B; Liu, H; Liu, Y (2020): Genome data for the draft assembly of the aquatic moss <i>Fontinalis antipyretica</i> (Fontinalaceae, Bryophyta) GigaScience Database. http://dx.doi.org/10.5524/100748

[Data Type] Genomic

[Dataset Summary]  Mosses compose one of the three lineages that form the sister group to extant vascular plants. Having emerged from an early split in the diversification of embryophytes, mosses may offer complementary insights into the evolution of traits following the transition to and colonization of land. To date, two nuclear genomes have been sequenced, namely the model taxon and acrocarpous moss <i>Physcomitrium patens</i>, and <i>Pleurozium schreberi</i> a representative of the diverse pleurocarpous hypnalean mosses. Here, we report the draft nuclear genome of <i>Fontinalis antipyretica</i> (Fontinalaceae, Hypnales), a charismatic aquatic moss widespread in temperate regions of the Northern Hemisphere. We sequenced and de novo assembled its genome using the 10X genomics method. The genome comprises 486.3 Mb, with a scaffold N50 of 38.8 kb. The assembly captured 89.4% of the 303 genes in the BUSCO eukaryote dataset. The newly generated F. antipyretica genome is the second genome of the highly speciose Hypnales, and provides the first opportunity for a comparative genomic study in this lineage that may have diversified after the rise of the angiosperms. It is also the second genome for a seedless aquatic plant, allowing for the assessment of independent genomic transformations linked to a reversed shift to an aquatic habitat.

[File Location] ftp://parrot.genomics.cn/gigadb/pub/10.5524/100001_101000/100748/

[File name] - [File Description]
readme_100748.txt  -  None
Fontinalis_antipyretica.pep.fasta  -  Annotated protein sequences of Fontinalis antipyretica, in fasta format.
Fontinalis_antipyretica.genome.fasta  -  Genome assembly of Fontinalis antipyretica, in fasta format.
Fontinalis_antipyretica.cds.fasta  -  Nucleotide CDS sequences of Fontinalis antipyretica, in fasta format.
Fontinalis_antipyretica.gene.annotation.gff  -  Gene structure annotation result, in GFF3 format.
Fontinalis_antipyretica.repeat.annotation.gff  -  Repeat sequence annotation result, in GFF3 format.
Fontinalis_antipyretica.BUSCO.log  -  BUSCO analysis result and log, plain text.
Fontinalis_antipyretica.BUSCO.full.table.tsv  -  BUSCO analysis detailed table, tab-deliminated text.
Fontinalis_antipyretica.msa.phy.txt  -  Multiple sequence alignment of single-copy genes of 9 species, including Fontinalis antipyretica. Phylip text format.
Fontinalis_antipyretica.phylogeny.newick.txt  -  Phylogenetic tree file, newick text format.
Fontinalis_antipyretica.flow.cytometry.zip  -  Flow cytometry results, FCS format output files and PDF visualisations of results


[License]
All files and data are distributed under the Creative Commons Attribution-CC0 License unless specifically stated otherwise, see http://gigadb.org/site/term for more details.

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