Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus
Damselfishes (Family: Pomacentridae) are a group of ecologically important, primarily coral reef fishes that include over 400 species. Damselfishes have been used as model organisms to study recruitment (anemonefishes), the effects of ocean acidification (spiny damselfish), population structure, and...
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2023
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ftcdlib:oai:escholarship.org:ark:/13030/qt0ww91186 2024-04-21T08:09:45+00:00 Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus Roberts, May B Schultz, Darrin T Gatins, Remy Escalona, Merly Bernardi, Giacomo de Koning, DJ jkac339 2023-04-11 application/pdf https://escholarship.org/uc/item/0ww91186 unknown eScholarship, University of California qt0ww91186 https://escholarship.org/uc/item/0ww91186 public G3: Genes, Genomes, Genetics, vol 13, iss 4 Biological Sciences Ecology Genetics Human Genome Life Below Water Animals Hydrogen-Ion Concentration Seawater Perciformes Fishes Karyotype hybrid genome assembly Robertsonian polymorphism chromosome fusion domino damselfish ONT Hi-C Chicago illumina shotgun coral reef fish Pomacentridae Biochemistry and cell biology Statistics article 2023 ftcdlib 2024-03-27T15:15:22Z Damselfishes (Family: Pomacentridae) are a group of ecologically important, primarily coral reef fishes that include over 400 species. Damselfishes have been used as model organisms to study recruitment (anemonefishes), the effects of ocean acidification (spiny damselfish), population structure, and speciation (Dascyllus). The genus Dascyllus includes a group of small-bodied species, and a complex of relatively larger bodied species, the Dascyllus trimaculatus species complex that is comprised of several species including D. trimaculatus itself. The three-spot damselfish, D. trimaculatus, is a widespread and common coral reef fish species found across the tropical Indo-Pacific. Here, we present the first-genome assembly of this species. This assembly contains 910 Mb, 90% of the bases are in 24 chromosome-scale scaffolds, and the Benchmarking Universal Single-Copy Orthologs score of the assembly is 97.9%. Our findings confirm previous reports of a karyotype of 2n = 47 in D. trimaculatus in which one parent contributes 24 chromosomes and the other 23. We find evidence that this karyotype is the result of a heterozygous Robertsonian fusion. We also find that the D. trimaculatus chromosomes are each homologous with single chromosomes of the closely related clownfish species, Amphiprion percula. This assembly will be a valuable resource in the population genomics and conservation of Damselfishes, and continued studies of the karyotypic diversity in this clade. Article in Journal/Newspaper Ocean acidification University of California: eScholarship |
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Open Polar |
collection |
University of California: eScholarship |
op_collection_id |
ftcdlib |
language |
unknown |
topic |
Biological Sciences Ecology Genetics Human Genome Life Below Water Animals Hydrogen-Ion Concentration Seawater Perciformes Fishes Karyotype hybrid genome assembly Robertsonian polymorphism chromosome fusion domino damselfish ONT Hi-C Chicago illumina shotgun coral reef fish Pomacentridae Biochemistry and cell biology Statistics |
spellingShingle |
Biological Sciences Ecology Genetics Human Genome Life Below Water Animals Hydrogen-Ion Concentration Seawater Perciformes Fishes Karyotype hybrid genome assembly Robertsonian polymorphism chromosome fusion domino damselfish ONT Hi-C Chicago illumina shotgun coral reef fish Pomacentridae Biochemistry and cell biology Statistics Roberts, May B Schultz, Darrin T Gatins, Remy Escalona, Merly Bernardi, Giacomo Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus |
topic_facet |
Biological Sciences Ecology Genetics Human Genome Life Below Water Animals Hydrogen-Ion Concentration Seawater Perciformes Fishes Karyotype hybrid genome assembly Robertsonian polymorphism chromosome fusion domino damselfish ONT Hi-C Chicago illumina shotgun coral reef fish Pomacentridae Biochemistry and cell biology Statistics |
description |
Damselfishes (Family: Pomacentridae) are a group of ecologically important, primarily coral reef fishes that include over 400 species. Damselfishes have been used as model organisms to study recruitment (anemonefishes), the effects of ocean acidification (spiny damselfish), population structure, and speciation (Dascyllus). The genus Dascyllus includes a group of small-bodied species, and a complex of relatively larger bodied species, the Dascyllus trimaculatus species complex that is comprised of several species including D. trimaculatus itself. The three-spot damselfish, D. trimaculatus, is a widespread and common coral reef fish species found across the tropical Indo-Pacific. Here, we present the first-genome assembly of this species. This assembly contains 910 Mb, 90% of the bases are in 24 chromosome-scale scaffolds, and the Benchmarking Universal Single-Copy Orthologs score of the assembly is 97.9%. Our findings confirm previous reports of a karyotype of 2n = 47 in D. trimaculatus in which one parent contributes 24 chromosomes and the other 23. We find evidence that this karyotype is the result of a heterozygous Robertsonian fusion. We also find that the D. trimaculatus chromosomes are each homologous with single chromosomes of the closely related clownfish species, Amphiprion percula. This assembly will be a valuable resource in the population genomics and conservation of Damselfishes, and continued studies of the karyotypic diversity in this clade. |
author2 |
de Koning, DJ |
format |
Article in Journal/Newspaper |
author |
Roberts, May B Schultz, Darrin T Gatins, Remy Escalona, Merly Bernardi, Giacomo |
author_facet |
Roberts, May B Schultz, Darrin T Gatins, Remy Escalona, Merly Bernardi, Giacomo |
author_sort |
Roberts, May B |
title |
Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus |
title_short |
Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus |
title_full |
Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus |
title_fullStr |
Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus |
title_full_unstemmed |
Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus |
title_sort |
chromosome-level genome of the three-spot damselfish, dascyllus trimaculatus |
publisher |
eScholarship, University of California |
publishDate |
2023 |
url |
https://escholarship.org/uc/item/0ww91186 |
op_coverage |
jkac339 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_source |
G3: Genes, Genomes, Genetics, vol 13, iss 4 |
op_relation |
qt0ww91186 https://escholarship.org/uc/item/0ww91186 |
op_rights |
public |
_version_ |
1796950960168239104 |