Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ...
Like their shallow-water counterparts, cold-water corals create reefs that support highly diverse communities, and these structures are subject to numerous anthropogenic threats. Here, we present the genome assembly of Lophelia pertusa from the southeastern coast of the USA, the first one for a deep...
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2023
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Online Access: | https://dx.doi.org/10.5524/102375 http://gigadb.org/dataset/102375 |
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ftdatacite:10.5524/102375 2023-06-11T04:13:52+02:00 Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... Santiago, Herrera Erik, Cordes E 2023 https://dx.doi.org/10.5524/102375 http://gigadb.org/dataset/102375 en eng GigaScience Database Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 Genomic scleractinia cold water azooxanthellate stony coral pacbio Dataset dataset GigaDB Dataset 2023 ftdatacite https://doi.org/10.5524/102375 2023-05-02T11:03:53Z Like their shallow-water counterparts, cold-water corals create reefs that support highly diverse communities, and these structures are subject to numerous anthropogenic threats. Here, we present the genome assembly of Lophelia pertusa from the southeastern coast of the USA, the first one for a deep-sea scleractinian coral species. We generated PacBio CLR data for an initial assembly and proximity ligation data for scaffolding. The assembly was annotated using evidence from transcripts, proteins, and ab initio gene model predictions. This assembly is comparable to high-quality reference genomes from shallow-water scleractinian corals. The assembly comprises 2,858 scaffolds (N50 1.6 Mbp) and has a size of 556.9 Mbp. Approximately 57% of the genome comprises repetitive elements and 34% of coding DNA. We predicted 41,089 genes, including 91.1% of complete metazoan orthologs. This assembly will facilitate investigations into the ecology of this species and the evolution of deep-sea corals. ... Dataset Lophelia pertusa DataCite Metadata Store (German National Library of Science and Technology) |
institution |
Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
English |
topic |
Genomic scleractinia cold water azooxanthellate stony coral pacbio |
spellingShingle |
Genomic scleractinia cold water azooxanthellate stony coral pacbio Santiago, Herrera Erik, Cordes E Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... |
topic_facet |
Genomic scleractinia cold water azooxanthellate stony coral pacbio |
description |
Like their shallow-water counterparts, cold-water corals create reefs that support highly diverse communities, and these structures are subject to numerous anthropogenic threats. Here, we present the genome assembly of Lophelia pertusa from the southeastern coast of the USA, the first one for a deep-sea scleractinian coral species. We generated PacBio CLR data for an initial assembly and proximity ligation data for scaffolding. The assembly was annotated using evidence from transcripts, proteins, and ab initio gene model predictions. This assembly is comparable to high-quality reference genomes from shallow-water scleractinian corals. The assembly comprises 2,858 scaffolds (N50 1.6 Mbp) and has a size of 556.9 Mbp. Approximately 57% of the genome comprises repetitive elements and 34% of coding DNA. We predicted 41,089 genes, including 91.1% of complete metazoan orthologs. This assembly will facilitate investigations into the ecology of this species and the evolution of deep-sea corals. ... |
format |
Dataset |
author |
Santiago, Herrera Erik, Cordes E |
author_facet |
Santiago, Herrera Erik, Cordes E |
author_sort |
Santiago, Herrera |
title |
Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... |
title_short |
Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... |
title_full |
Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... |
title_fullStr |
Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... |
title_full_unstemmed |
Supporting data for "Genome assembly of the deep-sea coral Lophelia pertusa" ... |
title_sort |
supporting data for "genome assembly of the deep-sea coral lophelia pertusa" ... |
publisher |
GigaScience Database |
publishDate |
2023 |
url |
https://dx.doi.org/10.5524/102375 http://gigadb.org/dataset/102375 |
genre |
Lophelia pertusa |
genre_facet |
Lophelia pertusa |
op_rights |
Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 |
op_doi |
https://doi.org/10.5524/102375 |
_version_ |
1768391267950002176 |