Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae)
Sponges are among the earliest branching extant animals. As such, genetic data from this group are valuable for understanding the evolution of various traits and processes in other animals. However, like many marine organisms, they are notoriously difficult to sequence, and hence, genomic data are s...
Published in: | G3: Genes, Genomes, Genetics |
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Umeå universitet, Institutionen för molekylärbiologi (Medicinska fakulteten)
2023
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Online Access: | http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-215937 https://doi.org/10.1093/g3journal/jkad192 |
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ftumeauniv:oai:DiVA.org:umu-215937 2024-02-11T10:06:23+01:00 Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) Steffen, Karin Proux-Wéra, Estelle Soler, Lucile Churcher, Allison M Sundh, John Cárdenas, Paco 2023 application/pdf http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-215937 https://doi.org/10.1093/g3journal/jkad192 eng eng Umeå universitet, Institutionen för molekylärbiologi (Medicinska fakulteten) Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, Uppsala, Sweden Department of Biochemistry and Biophysics, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Stockholm University, Solna, Sweden Department of Medical Biochemistry and Microbiology, National Bioinformatics Infrastructure Sweden (NBIS), Science for Life Laboratory, Uppsala University, Uppsala, Sweden Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, Uppsala, Sweden; Museum of Evolution, Uppsala University, Uppsala, Sweden G3 : Genes, Genomes, Genetics, 2023, 13:10, orcid:0000-0003-1902-3002 http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-215937 doi:10.1093/g3journal/jkad192 PMID 37619978 ISI:001058715700001 Scopus 2-s2.0-85174513308 info:eu-repo/semantics/openAccess Geodia barretti metagenome-assembled genome Porifera Sweden symbionts Tetractinellida Genetics Genetik Evolutionary Biology Evolutionsbiologi Article in journal info:eu-repo/semantics/article text 2023 ftumeauniv https://doi.org/10.1093/g3journal/jkad192 2024-01-17T23:36:41Z Sponges are among the earliest branching extant animals. As such, genetic data from this group are valuable for understanding the evolution of various traits and processes in other animals. However, like many marine organisms, they are notoriously difficult to sequence, and hence, genomic data are scarce. Here, we present the draft genome assembly for the North Atlantic deep-sea high microbial abundance species Geodia barretti Bowerbank 1858, from a single individual collected on the West Coast of Sweden. The nuclear genome assembly has 4,535 scaffolds, an N50 of 48,447 bp and a total length of 144 Mb; the mitochondrial genome is 17,996 bp long. BUSCO completeness was 71.5%. The genome was annotated using a combination of ab initio and evidence-based methods finding 31,884 protein-coding genes. Article in Journal/Newspaper North Atlantic Umeå University: Publications (DiVA) G3: Genes, Genomes, Genetics 13 10 |
institution |
Open Polar |
collection |
Umeå University: Publications (DiVA) |
op_collection_id |
ftumeauniv |
language |
English |
topic |
Geodia barretti metagenome-assembled genome Porifera Sweden symbionts Tetractinellida Genetics Genetik Evolutionary Biology Evolutionsbiologi |
spellingShingle |
Geodia barretti metagenome-assembled genome Porifera Sweden symbionts Tetractinellida Genetics Genetik Evolutionary Biology Evolutionsbiologi Steffen, Karin Proux-Wéra, Estelle Soler, Lucile Churcher, Allison M Sundh, John Cárdenas, Paco Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) |
topic_facet |
Geodia barretti metagenome-assembled genome Porifera Sweden symbionts Tetractinellida Genetics Genetik Evolutionary Biology Evolutionsbiologi |
description |
Sponges are among the earliest branching extant animals. As such, genetic data from this group are valuable for understanding the evolution of various traits and processes in other animals. However, like many marine organisms, they are notoriously difficult to sequence, and hence, genomic data are scarce. Here, we present the draft genome assembly for the North Atlantic deep-sea high microbial abundance species Geodia barretti Bowerbank 1858, from a single individual collected on the West Coast of Sweden. The nuclear genome assembly has 4,535 scaffolds, an N50 of 48,447 bp and a total length of 144 Mb; the mitochondrial genome is 17,996 bp long. BUSCO completeness was 71.5%. The genome was annotated using a combination of ab initio and evidence-based methods finding 31,884 protein-coding genes. |
format |
Article in Journal/Newspaper |
author |
Steffen, Karin Proux-Wéra, Estelle Soler, Lucile Churcher, Allison M Sundh, John Cárdenas, Paco |
author_facet |
Steffen, Karin Proux-Wéra, Estelle Soler, Lucile Churcher, Allison M Sundh, John Cárdenas, Paco |
author_sort |
Steffen, Karin |
title |
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) |
title_short |
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) |
title_full |
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) |
title_fullStr |
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) |
title_full_unstemmed |
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae) |
title_sort |
whole genome sequence of the deep-sea sponge geodia barretti (metazoa, porifera, demospongiae) |
publisher |
Umeå universitet, Institutionen för molekylärbiologi (Medicinska fakulteten) |
publishDate |
2023 |
url |
http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-215937 https://doi.org/10.1093/g3journal/jkad192 |
genre |
North Atlantic |
genre_facet |
North Atlantic |
op_relation |
G3 : Genes, Genomes, Genetics, 2023, 13:10, orcid:0000-0003-1902-3002 http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-215937 doi:10.1093/g3journal/jkad192 PMID 37619978 ISI:001058715700001 Scopus 2-s2.0-85174513308 |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1093/g3journal/jkad192 |
container_title |
G3: Genes, Genomes, Genetics |
container_volume |
13 |
container_issue |
10 |
_version_ |
1790604054396665856 |