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The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars

Musa acuminata is a main wild contributor to banana cultivars. Here, we reported a haplotype-resolved and telomere-to-telomere reference genome of M. acuminata by incorporating PacBio HiFi reads, Nanopore ultra-long reads, and Hi-C data. The genome size of the two haploid assemblies was estimated to...

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Autores principales: Liu, Xin, Arshad, Rida, Wang, Xu, Li, Wei-Ming, Zhou, Yongfeng, Ge, Xue-Jun, Huang, Hui-Run
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10505225/
https://www.ncbi.nlm.nih.gov/pubmed/37716992
http://dx.doi.org/10.1038/s41597-023-02546-9
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author Liu, Xin
Arshad, Rida
Wang, Xu
Li, Wei-Ming
Zhou, Yongfeng
Ge, Xue-Jun
Huang, Hui-Run
author_facet Liu, Xin
Arshad, Rida
Wang, Xu
Li, Wei-Ming
Zhou, Yongfeng
Ge, Xue-Jun
Huang, Hui-Run
author_sort Liu, Xin
collection PubMed
description Musa acuminata is a main wild contributor to banana cultivars. Here, we reported a haplotype-resolved and telomere-to-telomere reference genome of M. acuminata by incorporating PacBio HiFi reads, Nanopore ultra-long reads, and Hi-C data. The genome size of the two haploid assemblies was estimated to be 469.83 Mb and 470.21 Mb, respectively. Multiple assessments confirmed the contiguity (contig N50: 16.53 Mb and 18.58 Mb; LAI: 20.18 and 19.48), completeness (BUSCOs: 98.57% and 98.57%), and correctness (QV: 45.97 and 46.12) of the genome. The repetitive sequences accounted for about half of the genome size. In total, 40,889 and 38,269 protein-coding genes were annotated in the two haploid assemblies, respectively, of which 9.56% and 3.37% were newly predicted. Genome comparison identified a large reciprocal translocation involving 3 Mb and 10 Mb from chromosomes 01 and 04 within M. acuminata. This reference genome of M. acuminata provides a valuable resource for further understanding of subgenome evolution of Musa species, and precise genetic improvement of banana.
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spelling pubmed-105052252023-09-18 The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars Liu, Xin Arshad, Rida Wang, Xu Li, Wei-Ming Zhou, Yongfeng Ge, Xue-Jun Huang, Hui-Run Sci Data Data Descriptor Musa acuminata is a main wild contributor to banana cultivars. Here, we reported a haplotype-resolved and telomere-to-telomere reference genome of M. acuminata by incorporating PacBio HiFi reads, Nanopore ultra-long reads, and Hi-C data. The genome size of the two haploid assemblies was estimated to be 469.83 Mb and 470.21 Mb, respectively. Multiple assessments confirmed the contiguity (contig N50: 16.53 Mb and 18.58 Mb; LAI: 20.18 and 19.48), completeness (BUSCOs: 98.57% and 98.57%), and correctness (QV: 45.97 and 46.12) of the genome. The repetitive sequences accounted for about half of the genome size. In total, 40,889 and 38,269 protein-coding genes were annotated in the two haploid assemblies, respectively, of which 9.56% and 3.37% were newly predicted. Genome comparison identified a large reciprocal translocation involving 3 Mb and 10 Mb from chromosomes 01 and 04 within M. acuminata. This reference genome of M. acuminata provides a valuable resource for further understanding of subgenome evolution of Musa species, and precise genetic improvement of banana. Nature Publishing Group UK 2023-09-16 /pmc/articles/PMC10505225/ /pubmed/37716992 http://dx.doi.org/10.1038/s41597-023-02546-9 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
Liu, Xin
Arshad, Rida
Wang, Xu
Li, Wei-Ming
Zhou, Yongfeng
Ge, Xue-Jun
Huang, Hui-Run
The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars
title The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars
title_full The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars
title_fullStr The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars
title_full_unstemmed The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars
title_short The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars
title_sort phased telomere-to-telomere reference genome of musa acuminata, a main contributor to banana cultivars
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10505225/
https://www.ncbi.nlm.nih.gov/pubmed/37716992
http://dx.doi.org/10.1038/s41597-023-02546-9
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