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Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei

Chondrichthyans (cartilaginous fishes) exhibit highly variable reproductive styles, categorized as viviparity and oviparity. Among these, species with oviparity provide an enormous potential of molecular experimentation with stable sample supply which does not demand the sacrifices of live mothers....

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Autores principales: Tanegashima, Chiharu, Nishimura, Osamu, Motone, Fumio, Tatsumi, Kaori, Kadota, Mitsutaka, Kuraku, Shigehiro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6174922/
https://www.ncbi.nlm.nih.gov/pubmed/30295675
http://dx.doi.org/10.1038/sdata.2018.200
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author Tanegashima, Chiharu
Nishimura, Osamu
Motone, Fumio
Tatsumi, Kaori
Kadota, Mitsutaka
Kuraku, Shigehiro
author_facet Tanegashima, Chiharu
Nishimura, Osamu
Motone, Fumio
Tatsumi, Kaori
Kadota, Mitsutaka
Kuraku, Shigehiro
author_sort Tanegashima, Chiharu
collection PubMed
description Chondrichthyans (cartilaginous fishes) exhibit highly variable reproductive styles, categorized as viviparity and oviparity. Among these, species with oviparity provide an enormous potential of molecular experimentation with stable sample supply which does not demand the sacrifices of live mothers. Cartilaginous fishes are divided into two subclasses, chimaeras (Holocephali) and elasmobranchs (Elasmobranchii), and the latter consists of two monophyletic groups, Batoidea (rays, skates and torpedoes) and Selachimorpha (sharks). Here we report transcriptome assemblies of the ocellate spot skate Okamejei kenojei, produced by strand-specific RNA-seq of its embryonic tissues. We obtained a total of 325 million illumina short reads from libraries prepared using four different tissue domains and assembled them all together. Our assembly result confirmed the species authenticity and high continuity of contig sequences. Also, assessment of its coverage of pre-selected one-to-one orthologs supported high diversity of transcripts in the assemblies. Our products are expected to provide a basis of comparative molecular studies encompassing other chondrichthyan species with emerging genomic and transcriptomic sequence information.
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spelling pubmed-61749222018-10-12 Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei Tanegashima, Chiharu Nishimura, Osamu Motone, Fumio Tatsumi, Kaori Kadota, Mitsutaka Kuraku, Shigehiro Sci Data Data Descriptor Chondrichthyans (cartilaginous fishes) exhibit highly variable reproductive styles, categorized as viviparity and oviparity. Among these, species with oviparity provide an enormous potential of molecular experimentation with stable sample supply which does not demand the sacrifices of live mothers. Cartilaginous fishes are divided into two subclasses, chimaeras (Holocephali) and elasmobranchs (Elasmobranchii), and the latter consists of two monophyletic groups, Batoidea (rays, skates and torpedoes) and Selachimorpha (sharks). Here we report transcriptome assemblies of the ocellate spot skate Okamejei kenojei, produced by strand-specific RNA-seq of its embryonic tissues. We obtained a total of 325 million illumina short reads from libraries prepared using four different tissue domains and assembled them all together. Our assembly result confirmed the species authenticity and high continuity of contig sequences. Also, assessment of its coverage of pre-selected one-to-one orthologs supported high diversity of transcripts in the assemblies. Our products are expected to provide a basis of comparative molecular studies encompassing other chondrichthyan species with emerging genomic and transcriptomic sequence information. Nature Publishing Group 2018-10-08 /pmc/articles/PMC6174922/ /pubmed/30295675 http://dx.doi.org/10.1038/sdata.2018.200 Text en Copyright © 2018, The Author(s) http://creativecommons.org/licenses/by/4.0/ Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ The Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the metadata files made available in this article.
spellingShingle Data Descriptor
Tanegashima, Chiharu
Nishimura, Osamu
Motone, Fumio
Tatsumi, Kaori
Kadota, Mitsutaka
Kuraku, Shigehiro
Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei
title Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei
title_full Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei
title_fullStr Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei
title_full_unstemmed Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei
title_short Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei
title_sort embryonic transcriptome sequencing of the ocellate spot skate okamejei kenojei
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6174922/
https://www.ncbi.nlm.nih.gov/pubmed/30295675
http://dx.doi.org/10.1038/sdata.2018.200
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