First draft genome sequence of the rock bream in the family Oplegnathidae

The rock bream (Oplegnathus fasciatus) is one of the most economically valuable marine fish in East Asia, and due to various environmental factors, there is substantial revenue loss in the production sector. Therefore, knowledge of its genome is required to uncover the genetic factors and the soluti...

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Autores principales: Shin, Younhee, Jung, Myunghee, Shin, Ga-hee, Jung, Ho-jin, Baek, Su-Jin, Lee, Gi-Yong, Kang, Byeong-Chul, Shim, Jaeyoung, Hong, Ji-man, Park, Jung Youn, An, Cheul Min, Kim, Young-Ok, Noh, Jae Koo, Kim, Ju-Won, Nam, Bo-Hye, Park, Chan-Il
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2018
Materias:
Data Descriptor
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6198749/
https://www.ncbi.nlm.nih.gov/pubmed/30351299
http://dx.doi.org/10.1038/sdata.2018.234
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author Shin, Younhee
Jung, Myunghee
Shin, Ga-hee
Jung, Ho-jin
Baek, Su-Jin
Lee, Gi-Yong
Kang, Byeong-Chul
Shim, Jaeyoung
Hong, Ji-man
Park, Jung Youn
An, Cheul Min
Kim, Young-Ok
Noh, Jae Koo
Kim, Ju-Won
Nam, Bo-Hye
Park, Chan-Il
author_facet Shin, Younhee
Jung, Myunghee
Shin, Ga-hee
Jung, Ho-jin
Baek, Su-Jin
Lee, Gi-Yong
Kang, Byeong-Chul
Shim, Jaeyoung
Hong, Ji-man
Park, Jung Youn
An, Cheul Min
Kim, Young-Ok
Noh, Jae Koo
Kim, Ju-Won
Nam, Bo-Hye
Park, Chan-Il
author_sort Shin, Younhee
collection PubMed
description The rock bream (Oplegnathus fasciatus) is one of the most economically valuable marine fish in East Asia, and due to various environmental factors, there is substantial revenue loss in the production sector. Therefore, knowledge of its genome is required to uncover the genetic factors and the solutions to these problems. In this study, we constructed the first draft genome of O. fasciatus as a reference for the family Oplegnathidae. The genome size is estimated to be 749 Mb, and it was assembled into 766 Mb by combining Illumina and PacBio sequences. A total of 24,053 transcripts (23,338 genes) are predicted, and among those transcripts, 23,362 (97%), are annotated with functional terms. Finally, the completeness of the genome assembly was assessed by CEGMA, which resulted in the complete mapping of 220 (88.7%) core genes in the genome. To the best of our knowledge, this is the first draft genome for the family Oplegnathidae.
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spelling pubmed-61987492018-10-29 First draft genome sequence of the rock bream in the family Oplegnathidae Shin, Younhee Jung, Myunghee Shin, Ga-hee Jung, Ho-jin Baek, Su-Jin Lee, Gi-Yong Kang, Byeong-Chul Shim, Jaeyoung Hong, Ji-man Park, Jung Youn An, Cheul Min Kim, Young-Ok Noh, Jae Koo Kim, Ju-Won Nam, Bo-Hye Park, Chan-Il Sci Data Data Descriptor The rock bream (Oplegnathus fasciatus) is one of the most economically valuable marine fish in East Asia, and due to various environmental factors, there is substantial revenue loss in the production sector. Therefore, knowledge of its genome is required to uncover the genetic factors and the solutions to these problems. In this study, we constructed the first draft genome of O. fasciatus as a reference for the family Oplegnathidae. The genome size is estimated to be 749 Mb, and it was assembled into 766 Mb by combining Illumina and PacBio sequences. A total of 24,053 transcripts (23,338 genes) are predicted, and among those transcripts, 23,362 (97%), are annotated with functional terms. Finally, the completeness of the genome assembly was assessed by CEGMA, which resulted in the complete mapping of 220 (88.7%) core genes in the genome. To the best of our knowledge, this is the first draft genome for the family Oplegnathidae. Nature Publishing Group 2018-10-23 /pmc/articles/PMC6198749/ /pubmed/30351299 http://dx.doi.org/10.1038/sdata.2018.234 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
Shin, Younhee
Jung, Myunghee
Shin, Ga-hee
Jung, Ho-jin
Baek, Su-Jin
Lee, Gi-Yong
Kang, Byeong-Chul
Shim, Jaeyoung
Hong, Ji-man
Park, Jung Youn
An, Cheul Min
Kim, Young-Ok
Noh, Jae Koo
Kim, Ju-Won
Nam, Bo-Hye
Park, Chan-Il
First draft genome sequence of the rock bream in the family Oplegnathidae
title First draft genome sequence of the rock bream in the family Oplegnathidae
title_full First draft genome sequence of the rock bream in the family Oplegnathidae
title_fullStr First draft genome sequence of the rock bream in the family Oplegnathidae
title_full_unstemmed First draft genome sequence of the rock bream in the family Oplegnathidae
title_short First draft genome sequence of the rock bream in the family Oplegnathidae
title_sort first draft genome sequence of the rock bream in the family oplegnathidae
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6198749/
https://www.ncbi.nlm.nih.gov/pubmed/30351299
http://dx.doi.org/10.1038/sdata.2018.234
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