A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)

As plentiful high-quality genome assemblies have been accumulated, reference-guided genome assembly can be a good approach to reconstruct a high-quality assembly. Here, we present a chromosome-level genome assembly of the Korean crossbred pig called Nanchukmacdon (the NCMD assembly) using the refere...

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Autores principales: Kwon, Daehong, Park, Nayoung, Wy, Suyeon, Lee, Daehwan, Chai, Han-Ha, Cho, In-Cheol, Lee, Jongin, Kwon, Kisang, Kim, Heesun, Moon, Youngbeen, Kim, Juyeon, Park, Woncheoul, Kim, Jaebum
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Data Descriptor
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10624824/
https://www.ncbi.nlm.nih.gov/pubmed/37923776
http://dx.doi.org/10.1038/s41597-023-02661-7
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author Kwon, Daehong
Park, Nayoung
Wy, Suyeon
Lee, Daehwan
Chai, Han-Ha
Cho, In-Cheol
Lee, Jongin
Kwon, Kisang
Kim, Heesun
Moon, Youngbeen
Kim, Juyeon
Park, Woncheoul
Kim, Jaebum
author_facet Kwon, Daehong
Park, Nayoung
Wy, Suyeon
Lee, Daehwan
Chai, Han-Ha
Cho, In-Cheol
Lee, Jongin
Kwon, Kisang
Kim, Heesun
Moon, Youngbeen
Kim, Juyeon
Park, Woncheoul
Kim, Jaebum
author_sort Kwon, Daehong
collection PubMed
description As plentiful high-quality genome assemblies have been accumulated, reference-guided genome assembly can be a good approach to reconstruct a high-quality assembly. Here, we present a chromosome-level genome assembly of the Korean crossbred pig called Nanchukmacdon (the NCMD assembly) using the reference-guided assembly approach with short and long reads. The NCMD assembly contains 20 chromosome-level scaffolds with a total size of 2.38 Gbp (N50: 138.77 Mbp). Its BUSCO score is 93.1%, which is comparable to the pig reference assembly, and a total of 20,588 protein-coding genes, 8,651 non-coding genes, and 996.14 Mbp of repetitive elements are annotated. The NCMD assembly was also used to close many gaps in the pig reference assembly. This NCMD assembly and annotation provide foundational resources for the genomic analyses of pig and related species.
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spelling pubmed-106248242023-11-05 A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa) Kwon, Daehong Park, Nayoung Wy, Suyeon Lee, Daehwan Chai, Han-Ha Cho, In-Cheol Lee, Jongin Kwon, Kisang Kim, Heesun Moon, Youngbeen Kim, Juyeon Park, Woncheoul Kim, Jaebum Sci Data Data Descriptor As plentiful high-quality genome assemblies have been accumulated, reference-guided genome assembly can be a good approach to reconstruct a high-quality assembly. Here, we present a chromosome-level genome assembly of the Korean crossbred pig called Nanchukmacdon (the NCMD assembly) using the reference-guided assembly approach with short and long reads. The NCMD assembly contains 20 chromosome-level scaffolds with a total size of 2.38 Gbp (N50: 138.77 Mbp). Its BUSCO score is 93.1%, which is comparable to the pig reference assembly, and a total of 20,588 protein-coding genes, 8,651 non-coding genes, and 996.14 Mbp of repetitive elements are annotated. The NCMD assembly was also used to close many gaps in the pig reference assembly. This NCMD assembly and annotation provide foundational resources for the genomic analyses of pig and related species. Nature Publishing Group UK 2023-11-03 /pmc/articles/PMC10624824/ /pubmed/37923776 http://dx.doi.org/10.1038/s41597-023-02661-7 Text en © The Author(s) 2023 https://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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Data Descriptor
Kwon, Daehong
Park, Nayoung
Wy, Suyeon
Lee, Daehwan
Chai, Han-Ha
Cho, In-Cheol
Lee, Jongin
Kwon, Kisang
Kim, Heesun
Moon, Youngbeen
Kim, Juyeon
Park, Woncheoul
Kim, Jaebum
A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
title A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
title_full A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
title_fullStr A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
title_full_unstemmed A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
title_short A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
title_sort chromosome-level genome assembly of the korean crossbred pig nanchukmacdon (sus scrofa)
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10624824/
https://www.ncbi.nlm.nih.gov/pubmed/37923776
http://dx.doi.org/10.1038/s41597-023-02661-7
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