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Article: A chromosome-level assembly of the Japanese eel genome, insights into gene duplication and chromosomal reorganization

TitleA chromosome-level assembly of the Japanese eel genome, insights into gene duplication and chromosomal reorganization
Authors
KeywordsAnguilla japonica
Ca2+channels
Gene Expansion
olfactory receptors
Phylogenomics
Issue Date8-Dec-2022
PublisherOxford University Press
Citation
GigaScience, 2022, v. 11 How to Cite?
Abstract

Japanese eels (Anguilla japonica) are commercially important species, harvested extensively for food. Currently, this and related species (American and European eels) are challenging to breed on a commercial basis. As a result, the wild stock is used for aquaculture. Moreover, climate change, habitat loss, water pollution, and altered ocean currents affect eel populations negatively. Accordingly, the International Union for Conservation of Nature lists Japanese eels as endangered and on its red list. Here we presented a high-quality genome assembly for Japanese eels and demonstrated that large chromosome reorganizations occurred in the events of third-round whole-genome duplications (3R-WRDs). Several chromosomal fusions and fissions have reduced the ancestral protochromosomal number of 25 to 19 in the Anguilla lineage. A phylogenetic analysis of the expanded gene families showed that the olfactory receptors (group δ and ζ genes) and voltage-gated Ca2+ channels expanded significantly. Both gene families are crucial for olfaction and neurophysiology. Additional tandem and proximal duplications occurred following 3R-WGD to acquire immune-related genes for an adaptive advantage against various pathogens. The Japanese eel assembly presented here can be used to study other Anguilla species relating to evolution and conservation.


Persistent Identifierhttp://hdl.handle.net/10722/338931
ISSN
2023 Impact Factor: 11.8
2023 SCImago Journal Rankings: 4.621
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorWang, H-
dc.contributor.authorWan, HT-
dc.contributor.authorWu, B-
dc.contributor.authorJian, J-
dc.contributor.authorNg, AHM-
dc.contributor.authorChung, CYL-
dc.contributor.authorChow, EYC-
dc.contributor.authorZhang, J-
dc.contributor.authorWong, AOL-
dc.contributor.authorLai, KP-
dc.contributor.authorChan, TF-
dc.contributor.authorZhang, EL-
dc.contributor.authorWong, CKC-
dc.date.accessioned2024-03-11T10:32:37Z-
dc.date.available2024-03-11T10:32:37Z-
dc.date.issued2022-12-08-
dc.identifier.citationGigaScience, 2022, v. 11-
dc.identifier.issn2047-217X-
dc.identifier.urihttp://hdl.handle.net/10722/338931-
dc.description.abstract<p>Japanese eels (<em>Anguilla japonica</em>) are commercially important species, harvested extensively for food. Currently, this and related species (American and European eels) are challenging to breed on a commercial basis. As a result, the wild stock is used for aquaculture. Moreover, climate change, habitat loss, water pollution, and altered ocean currents affect eel populations negatively. Accordingly, the International Union for Conservation of Nature lists Japanese eels as endangered and on its red list. Here we presented a high-quality genome assembly for Japanese eels and demonstrated that large chromosome reorganizations occurred in the events of third-round whole-genome duplications (3R-WRDs). Several chromosomal fusions and fissions have reduced the ancestral protochromosomal number of 25 to 19 in the Anguilla lineage. A phylogenetic analysis of the expanded gene families showed that the olfactory receptors (group δ and ζ genes) and voltage-gated Ca<sup>2+</sup> channels expanded significantly. Both gene families are crucial for olfaction and neurophysiology. Additional tandem and proximal duplications occurred following 3R-WGD to acquire immune-related genes for an adaptive advantage against various pathogens. The Japanese eel assembly presented here can be used to study other Anguilla species relating to evolution and conservation.</p>-
dc.languageeng-
dc.publisherOxford University Press-
dc.relation.ispartofGigaScience-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.subjectAnguilla japonica-
dc.subjectCa2+channels-
dc.subjectGene Expansion-
dc.subjectolfactory receptors-
dc.subjectPhylogenomics-
dc.titleA chromosome-level assembly of the Japanese eel genome, insights into gene duplication and chromosomal reorganization-
dc.typeArticle-
dc.identifier.doi10.1093/gigascience/giac120-
dc.identifier.scopuseid_2-s2.0-85143556530-
dc.identifier.volume11-
dc.identifier.eissn2047-217X-
dc.identifier.isiWOS:001186470300004-
dc.identifier.issnl2047-217X-

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